Pierrick Roger
| Snapshot Date: 2025-09-28 13:45 -0400 (Sun, 28 Sep 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: b5e26aa |
| git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-09-29 12:04 -0400 (Mon, 29 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4833 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4621 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4566 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4563 |
| 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 207/2334 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.15.1 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | ERROR | OK | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
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: 1.15.1 |
| 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_1.15.1.tar.gz |
| StartedAt: 2025-09-28 19:47:57 -0400 (Sun, 28 Sep 2025) |
| EndedAt: 2025-09-28 19:49:31 -0400 (Sun, 28 Sep 2025) |
| EllapsedTime: 93.4 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: biodbChebi.Rcheck |
| Warnings: NA |
##############################################################################
##############################################################################
###
### 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_1.15.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-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 Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* 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’
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
3. └─testthat::expect_true(!is.na(content))
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
nchar(content) > 0 is not TRUE
`actual`:
`expected`: TRUE
Backtrace:
▆
1. ├─base::do.call(fct, params)
2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
3. └─testthat::expect_true(nchar(content) > 0)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
Error: Test failures
Execution halted
* 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: 1 ERROR
See
‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck/00check.log’
for details.
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-x86_64/Resources/library’ * installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.15.1’ ** 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.fail
R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-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 [2025-09-28 19:49:01.887][biodb::testContext]
biodb.INFO [2025-09-28 19:49:01.892][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:01.894][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-28 19:49:01.895][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:01.897][biodb::testContext]
biodb.INFO [2025-09-28 19:49:01.905][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:01.908][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:01.917][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:01.920][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-28 19:49:01.921][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-28 19:49:01.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:01.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:01.927][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-28 19:49:01.952][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-28 19:49:01.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:01.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:01.958][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-28 19:49:01.960][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-28 19:49:01.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:01.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:01.965][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-28 19:49:01.967][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-28 19:49:01.968][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-28 19:49:01.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:01.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:01.973][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-28 19:49:01.975][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-28 19:49:01.976][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-28 19:49:01.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:01.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:01.981][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-28 19:49:01.983][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-28 19:49:01.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:01.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:01.988][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-28 19:49:01.989][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-28 19:49:01.990][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-28 19:49:01.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:01.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:01.995][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-28 19:49:01.997][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-28 19:49:01.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:01.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.001][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-28 19:49:02.015][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-28 19:49:02.017][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-28 19:49:02.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.022][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:02.024][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-28 19:49:02.025][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-28 19:49:02.026][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-28 19:49:02.028][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-28 19:49:02.029][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-28 19:49:02.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.034][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-28 19:49:02.035][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-28 19:49:02.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.040][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-28 19:49:02.042][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-28 19:49:02.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.053][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-28 19:49:02.055][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-28 19:49:02.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.062][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-28 19:49:02.063][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-28 19:49:02.065][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-28 19:49:02.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.075][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:02.077][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-28 19:49:02.102][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-28 19:49:02.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.108][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-28 19:49:02.109][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-28 19:49:02.111][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-28 19:49:02.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.114][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.DEBUG[2025-09-28 19:49:02.119][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-28 19:49:02.164][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.187][self$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[2025-09-28 19:49:02.188][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.189][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:02.191][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.192][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.194][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.195][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.197][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:02.203][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:02.205][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.207][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-28 19:49:02.209][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:02.210][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.211][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.212][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:02.212][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:02.212][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:02.212][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:02.212][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:02.213][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:02.215][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.216][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.218][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:02.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.224][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.225][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.226][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.228][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:02.229][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:02.230][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.232][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.233][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-28 19:49:02.235][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.237][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:02.238][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.240][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:02.241][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.242][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.244][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.245][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.246][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:02.247][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:02.249][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.250][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-28 19:49:02.251][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:02.253][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.254][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.256][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:02.256][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:02.256][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:02.256][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:02.256][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:02.257][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:02.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.260][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.261][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:02.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.265][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.266][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.268][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:02.269][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:02.270][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.271][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.273][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-28 19:49:02.275][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.276][self$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[2025-09-28 19:49:02.278][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.279][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:02.280][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.281][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.282][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.284][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.285][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:02.287][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:02.288][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.289][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-28 19:49:02.291][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:02.292][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.301][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.303][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.305][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:02.306][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.308][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.308][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:02.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.312][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.313][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.314][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:02.315][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:02.317][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.318][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.319][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-28 19:49:02.321][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.323][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:02.324][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.326][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:02.327][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.328][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.330][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.331][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.332][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:02.334][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:02.335][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.337][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-28 19:49:02.338][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:02.339][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.341][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.342][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.348][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:02.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.350][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.352][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:02.353][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.355][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.356][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.358][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:02.359][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:02.360][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.361][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:02.365][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:02.370][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.401][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[2025-09-28 19:49:02.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.407][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[2025-09-28 19:49:02.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.412][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[2025-09-28 19:49:02.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.418][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[2025-09-28 19:49:02.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.424][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[2025-09-28 19:49:02.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.430][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[2025-09-28 19:49:02.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.465][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[2025-09-28 19:49:02.466][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-28 19:49:02.471][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-28 19:49:02.473][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-28 19:49:02.475][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-28 19:49:02.477][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:02.479][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-28 19:49:02.481][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:02.483][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:02.485][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-28 19:49:02.487][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-28 19:49:02.491][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:02.493][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-28 19:49:02.495][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:02.497][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:02.499][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-28 19:49:02.501][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-28 19:49:02.503][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-28 19:49:02.504][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-28 19:49:02.506][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:02.509][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-28 19:49:02.512][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-28 19:49:02.514][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-28 19:49:02.516][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-28 19:49:02.517][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-28 19:49:02.519][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-28 19:49:02.521][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-28 19:49:02.523][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-28 19:49:02.525][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-28 19:49:02.527][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-28 19:49:02.528][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-28 19:49:02.529][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-28 19:49:02.531][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-28 19:49:02.533][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-28 19:49:02.535][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-28 19:49:02.543][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-28 19:49:02.545][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-28 19:49:02.548][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-28 19:49:02.550][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-28 19:49:02.551][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-28 19:49:02.553][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-28 19:49:02.555][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-28 19:49:02.557][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-28 19:49:02.559][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-28 19:49:02.560][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-28 19:49:02.562][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-28 19:49:02.564][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-28 19:49:02.566][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-28 19:49:02.568][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-28 19:49:02.570][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-28 19:49:02.572][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-28 19:49:02.574][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-28 19:49:02.576][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-28 19:49:02.578][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-28 19:49:02.579][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-28 19:49:02.581][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-28 19:49:02.583][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-28 19:49:02.585][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-28 19:49:02.586][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-28 19:49:02.588][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-28 19:49:02.589][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-28 19:49:02.591][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-28 19:49:02.593][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-28 19:49:02.594][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-28 19:49:02.596][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-28 19:49:02.597][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-28 19:49:02.599][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-28 19:49:02.600][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:02.602][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:02.603][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-28 19:49:02.605][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-28 19:49:02.607][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-28 19:49:02.609][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-28 19:49:02.611][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-28 19:49:02.612][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-28 19:49:02.614][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-28 19:49:02.615][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-28 19:49:02.617][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-28 19:49:02.619][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-28 19:49:02.620][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-28 19:49:02.622][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-28 19:49:02.624][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-28 19:49:02.625][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-28 19:49:02.626][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-28 19:49:02.635][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-28 19:49:02.638][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:02.642][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:02.644][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.647][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.666][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[2025-09-28 19:49:02.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.683][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[2025-09-28 19:49:02.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.706][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.DEBUG[2025-09-28 19:49:02.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.721][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[2025-09-28 19:49:02.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.728][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[2025-09-28 19:49:02.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.751][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.DEBUG[2025-09-28 19:49:02.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:02.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:02.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.801][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[2025-09-28 19:49:02.803][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:02.817][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-28 19:49:02.819][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.821][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.823][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.824][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:02.826][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.827][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.829][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.830][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-28 19:49:02.832][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-28 19:49:02.833][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:02.835][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.836][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-28 19:49:02.837][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-28 19:49:02.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-28 19:49:02.841][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:02.842][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:02.842][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:02.842][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:02.843][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-28 19:49:02.844][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.847][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:02.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:02.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:02.849][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:02.850][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-28 19:49:02.850][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-28 19:49:02.851][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:02.852][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:02.853][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:02.854][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-28 19:49:02.854][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-28 19:49:02.863][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:02.866][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:02.868][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-28 19:49:02.870][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:02.872][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:02.874][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:02.905][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-28 19:49:02.926][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-28 19:49:02.938][biodb::testThat]
biodb.INFO [2025-09-28 19:49:02.940][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-09-28 19:49:02.942][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:02.943][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:02.949][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-28 19:49:02.952][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:02.956][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:02.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:02.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:02.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:02.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:02.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:02.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:02.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:03.004][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.006][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.009][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.047][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:03.049][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:03.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.051][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.085][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:03.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:03.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.093][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:03.094][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:03.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.097][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:03.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:03.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.103][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:03.105][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:03.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.107][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:03.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:03.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.115][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.116][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.118][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.127][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.129][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.131][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.137][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:03.139][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.141][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.143][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:03.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.152][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.160][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:03.161][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:03.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.163][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:03.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:03.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.170][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:03.172][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.175][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.176][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:03.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.182][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:03.183][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:03.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.186][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.187][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:03.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:03.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:03.303][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-28 19:49:03.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:03.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:03.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:03.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:03.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:03.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.377][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-28 19:49:03.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-28 19:49:03.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.383][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-28 19:49:03.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-28 19:49:03.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.387][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-28 19:49:03.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-28 19:49:03.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.440][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-28 19:49:03.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-28 19:49:03.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.591][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.593][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.596][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:03.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:03.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.633][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.637][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:03.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:03.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:03.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:03.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:03.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:03.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:03.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.695][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:03.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:03.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.700][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:03.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:03.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:03.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:03.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:03.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:03.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.728][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:03.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:03.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.733][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:03.734][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:03.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.737][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.738][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:03.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:03.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.772][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.773][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.776][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:03.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.812][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.814][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.816][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:03.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.840][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:03.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:03.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.847][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:03.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:03.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.856][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:03.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:03.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.862][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:03.863][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:03.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.866][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.867][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:03.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:03.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.885][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.899][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.904][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.910][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.912][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.914][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.916][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:03.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.934][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.941][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.946][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.955][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.957][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:03.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.973][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:03.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:03.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.980][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:03.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:03.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.986][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:03.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:03.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:03.993][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:03.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:03.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:03.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:03.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:03.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.038][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.040][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.043][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.079][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.080][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.101][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.109][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.112][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.119][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:04.120][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:04.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.123][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.130][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:04.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:04.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.134][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.143][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.145][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.152][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.153][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.156][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.163][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:04.164][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:04.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.166][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.173][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:04.175][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:04.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.177][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.185][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.186][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.189][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.199][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-28 19:49:04.201][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:04.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.203][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.211][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.217][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.225][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:04.226][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:04.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.229][ef$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:04.240][biodb::testThat]
biodb.INFO [2025-09-28 19:49:04.242][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-28 19:49:04.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:04.244][biodb::testThat]
biodb.DEBUG[2025-09-28 19:49:04.262][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-28 19:49:04.267][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:04.271][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:04.277][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-28 19:49:04.279][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:04.320][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:04.321][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:04.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:04.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:04.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:04.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:04.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:04.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:04.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:04.342][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.343][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.346][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:04.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:04.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.379][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:04.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:04.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.393][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:04.395][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:04.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.398][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.399][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:04.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:04.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.403][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.405][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.409][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:04.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:04.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.418][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.420][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.423][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:04.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.430][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:04.432][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:04.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.435][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.436][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:04.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:04.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.441][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:04.443][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:04.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.445][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.446][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:04.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:04.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.453][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.456][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.463][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.466][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.472][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:04.473][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:04.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.475][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:04.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:04.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:04.482][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:04.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.484][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.486][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:04.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:04.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:04.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:04.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:04.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:04.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:04.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:04.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:04.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:04.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:04.548][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-28 19:49:04.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-28 19:49:04.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-28 19:49:04.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-28 19:49:04.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-28 19:49:04.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-28 19:49:04.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-28 19:49:04.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:04.585][biodb::testThat]
biodb.INFO [2025-09-28 19:49:04.587][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-28 19:49:04.590][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:04.591][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:04.595][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.597][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.599][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:04.601][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-28 19:49:04.638][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:04.655][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-28 19:49:04.661][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-28 19:49:04.692][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:04.697][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-28 19:49:04.698][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:04.724][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".
fscache.INFO [2025-09-28 19:49:04.764][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:04.768][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:04.770][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:04.772][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-28 19:49:04.792][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.794][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:04.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.796][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.798][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:04.799][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:04.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.802][ef$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:04.808][biodb::testThat]
biodb.INFO [2025-09-28 19:49:04.810][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-09-28 19:49:04.811][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:04.813][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:04.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.862][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:04.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:04.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:04.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:04.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:04.945][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".
fscache.INFO [2025-09-28 19:49:04.949][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:04.953][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:04.955][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-28 19:49:04.978][biodb::testThat]
biodb.INFO [2025-09-28 19:49:04.980][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-09-28 19:49:04.981][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:04.982][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:05.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:05.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:05.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:05.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:05.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.056][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.061][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.066][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-28 19:49:05.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-28 19:49:05.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.071][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-28 19:49:05.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-28 19:49:05.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:05.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:05.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:05.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:05.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:05.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:05.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.135][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.140][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-28 19:49:05.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.145][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-28 19:49:05.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-28 19:49:05.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:05.150][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-28 19:49:05.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-28 19:49:05.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:05.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:05.169][biodb::testThat]
biodb.INFO [2025-09-28 19:49:05.171][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-28 19:49:05.172][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:05.173][biodb::testThat]
biodb.INFO [2025-09-28 19:49:05.185][biodb::testThat]
biodb.INFO [2025-09-28 19:49:05.187][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-28 19:49:05.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:05.190][biodb::testThat]
biodb.INFO [2025-09-28 19:49:05.202][biodb::testThat]
biodb.INFO [2025-09-28 19:49:05.203][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-28 19:49:05.205][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:05.206][biodb::testThat]
biodb.DEBUG[2025-09-28 19:49:05.211][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-28 19:49:05.805][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440 does not exist.
sched.TRACE[2025-09-28 19:49:05.806][sched::get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-09-28 19:49:05.808][sched::get_url_request_result] URL "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-09-28 19:49:05.810][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-28 19:49:06.414][biodb::testThat]
biodb.INFO [2025-09-28 19:49:06.416][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-28 19:49:06.417][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:06.419][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:06.428][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:06.429][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:06.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.432][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.433][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:06.434][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:06.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.438][ef$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:06.441][biodb::testThat]
biodb.INFO [2025-09-28 19:49:06.442][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-09-28 19:49:06.443][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:06.444][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:06.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:06.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:06.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:06.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:06.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.475][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:06.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:06.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:06.598][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".
fscache.INFO [2025-09-28 19:49:06.601][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:06.605][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:06.606][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:06.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:06.898][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:06.902][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:06.903][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-28 19:49:06.923][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-28 19:49:06.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-28 19:49:06.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:06.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:06.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:06.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:06.973][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".
fscache.INFO [2025-09-28 19:49:06.977][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:06.981][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-28 19:49:06.982][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:06.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:06.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:06.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:06.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:06.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.002][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[2025-09-28 19:49:07.003][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-28 19:49:07.074][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:07.076][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:07.081][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-28 19:49:07.083][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:07.084][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:07.086][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:07.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:07.106][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.108][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.111][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.118][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:07.119][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:07.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.124][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:07.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:07.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.129][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:07.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:07.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.132][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:07.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:07.142][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:07.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.145][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:07.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:07.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.154][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.157][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.164][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:07.165][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:07.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.168][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.169][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:07.170][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.173][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.175][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:07.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.181][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.182][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.185][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.193][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:07.195][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:07.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:07.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:07.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.205][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:07.207][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:07.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.210][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:07.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:07.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.216][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:07.218][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:07.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:07.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:07.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:07.295][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-28 19:49:07.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:07.328][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:07.340][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:07.343][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-28 19:49:07.345][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:07.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:07.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:07.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:07.412][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-28 19:49:07.413][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:07.415][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:07.418][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-28 19:49:07.420][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:07.421][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:07.423][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:07.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:07.442][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.444][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.447][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.455][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:07.456][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:07.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.460][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:07.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:07.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.465][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:07.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:07.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.469][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:07.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:07.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.476][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:07.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:07.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:07.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:07.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.487][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.488][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.490][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.497][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:07.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:07.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.501][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.502][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:07.504][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.506][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.508][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:07.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.518][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.524][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:07.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:07.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.528][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:07.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:07.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.535][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:07.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:07.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.539][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.540][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:07.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:07.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.546][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:07.547][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:07.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.551][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:07.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:07.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:07.613][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-28 19:49:07.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:07.656][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".
fscache.INFO [2025-09-28 19:49:07.660][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:07.664][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:07.666][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:07.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:07.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:07.703][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.717][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[2025-09-28 19:49:07.718][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-28 19:49:07.719][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:07.721][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:07.725][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-28 19:49:07.727][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:07.728][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:07.730][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:07.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:07.750][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.752][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.755][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.762][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:07.763][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:07.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.767][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:07.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:07.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.771][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.773][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:07.776][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:07.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.778][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.780][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.782][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:07.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.785][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.786][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:07.788][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:07.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.790][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.792][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:07.793][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.796][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.798][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.799][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:07.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.801][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.803][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:07.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:07.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.807][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:07.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:07.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.815][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:07.817][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:07.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.819][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.821][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:07.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.826][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:07.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:07.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.830][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:07.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:07.896][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-28 19:49:07.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:07.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:07.939][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-28 19:49:07.941][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:07.942][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:07.946][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-28 19:49:07.948][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:07.949][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:07.951][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:07.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:07.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:07.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:07.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:07.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:07.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:07.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:07.969][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.971][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.973][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:07.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:07.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.983][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:07.984][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:07.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.987][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.989][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:07.990][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:07.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.992][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.994][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:07.996][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:07.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:07.998][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:07.999][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.001][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.003][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.005][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.006][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.009][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.010][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.011][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.014][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.017][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.019][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.021][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.023][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.025][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.034][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.035][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.037][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.039][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.045][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.048][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.102][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-28 19:49:08.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:08.144][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-28 19:49:08.146][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:08.147][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:08.150][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-28 19:49:08.151][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:08.153][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:08.154][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:08.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:08.171][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.174][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.180][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:08.182][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:08.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.184][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.185][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:08.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:08.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.189][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.191][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:08.192][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:08.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.194][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.195][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.196][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.198][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.199][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.201][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.203][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.204][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.206][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.208][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.209][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.213][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.215][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.216][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.219][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.221][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.226][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.227][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.229][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.231][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.236][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.238][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.291][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-28 19:49:08.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:08.330][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-28 19:49:08.332][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:08.334][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:08.339][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-28 19:49:08.341][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:08.342][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:08.344][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:08.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:08.362][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.363][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.366][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.372][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:08.373][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:08.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.377][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:08.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:08.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.383][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:08.384][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:08.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.387][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.389][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:08.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:08.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.394][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:08.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:08.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.398][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:08.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:08.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.415][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.418][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.425][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.426][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.428][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.430][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.435][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.436][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.439][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.440][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.449][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.455][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.457][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.470][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.471][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.476][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.477][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.536][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-28 19:49:08.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.566][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[2025-09-28 19:49:08.567][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-28 19:49:08.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:08.570][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:08.575][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-28 19:49:08.577][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:08.578][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:08.580][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:08.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:08.599][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.601][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.610][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:08.612][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:08.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.614][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.616][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:08.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:08.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.621][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:08.622][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:08.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.626][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:08.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:08.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.630][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:08.632][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:08.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.635][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:08.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:08.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.642][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.643][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.652][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.656][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.657][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.662][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.663][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.666][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.671][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.673][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.675][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.683][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.685][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.687][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.694][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.696][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.698][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.700][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.704][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.705][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.707][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.708][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.762][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-28 19:49:08.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:08.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:08.798][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-28 19:49:08.799][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:08.801][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:08.807][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-28 19:49:08.808][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:08.810][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:08.811][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:08.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:08.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:08.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:08.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:08.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:08.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:08.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:08.831][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.832][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.835][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.841][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:08.842][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:08.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.844][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.846][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:08.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:08.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.852][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:08.853][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:08.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.855][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.856][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:08.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:08.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.862][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:08.864][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:08.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.866][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:08.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:08.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.873][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.875][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:08.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.885][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.886][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:08.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.888][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.890][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.891][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.893][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.895][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:08.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:08.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.901][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.902][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.904][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:08.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.911][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.913][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.925][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.928][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.934][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.936][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.942][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:08.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:08.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.950][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.951][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.953][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.955][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:08.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:08.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:08.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:08.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:08.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:08.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:08.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.010][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-28 19:49:09.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:09.043][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-28 19:49:09.044][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:09.046][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:09.052][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-28 19:49:09.053][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:09.055][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:09.057][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:09.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.075][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[2025-09-28 19:49:09.078][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.080][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.091][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.092][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.094][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.101][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.103][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.105][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.113][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.115][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.117][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.125][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.126][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.129][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.136][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.137][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.140][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.142][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.143][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.146][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.148][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.155][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.157][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.163][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.164][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.167][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.174][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.176][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.178][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.186][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.187][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.190][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.192][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.253][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-28 19:49:09.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:09.287][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-28 19:49:09.288][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:09.291][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:09.295][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-28 19:49:09.296][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:09.298][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:09.300][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:09.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:09.318][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.320][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.322][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.329][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.334][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.335][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.340][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.344][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.346][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.351][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.355][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.362][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.366][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.373][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.374][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.377][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.378][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.380][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.382][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.384][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.391][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.393][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.400][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.402][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.404][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.413][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.416][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.417][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.423][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.425][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.427][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.428][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.490][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-28 19:49:09.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.520][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[2025-09-28 19:49:09.522][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-28 19:49:09.524][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:09.526][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:09.530][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-28 19:49:09.531][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:09.533][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:09.534][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:09.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:09.554][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.556][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.558][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.565][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.567][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.569][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.571][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.575][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.576][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.578][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.580][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.585][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.586][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.589][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.596][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.598][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.600][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.607][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.612][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.613][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.617][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.619][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.624][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.628][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.635][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.639][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.646][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.648][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.650][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.651][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.657][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.658][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.660][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.662][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.721][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-28 19:49:09.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:09.754][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-28 19:49:09.755][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:09.757][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:09.761][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-28 19:49:09.762][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:09.764][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:09.766][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:09.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:09.786][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.788][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.790][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.797][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.799][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.801][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.803][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:09.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:09.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.808][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.810][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.813][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.814][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:09.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:09.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.819][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.821][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.823][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:09.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:09.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.830][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.832][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.834][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.841][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.842][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:09.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.845][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.846][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.848][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.851][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.853][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:09.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.859][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.860][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.863][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:09.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.869][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.873][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:09.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:09.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.880][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.881][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.883][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.885][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:09.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:09.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.890][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.892][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.896][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:09.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:09.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:09.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:09.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.955][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-28 19:49:09.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:09.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:09.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:09.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:09.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:09.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:09.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:09.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:09.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:09.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:09.987][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[2025-09-28 19:49:09.996][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-28 19:49:09.998][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:10.000][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:10.003][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-28 19:49:10.005][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:10.006][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:10.008][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:10.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:10.027][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.031][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.037][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.039][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.041][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.042][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.048][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.049][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.051][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.053][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.058][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:10.060][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:10.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.062][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.063][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.067][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.069][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.070][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.072][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.074][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.075][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.078][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.080][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.085][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.086][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.089][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.097][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.101][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.109][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.110][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.113][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.120][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:10.122][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:10.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.124][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.181][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-28 19:49:10.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:10.215][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-28 19:49:10.217][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:10.219][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:10.223][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-28 19:49:10.224][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:10.226][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:10.228][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:10.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:10.248][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.250][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.252][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.260][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.261][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.264][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.266][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.271][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.275][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.282][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:10.283][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:10.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.286][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.287][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.289][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.291][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.293][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.294][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.297][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.298][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.300][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.303][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.304][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.310][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.311][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.314][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.320][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.322][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.324][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.332][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.333][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.336][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.337][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.343][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:10.344][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:10.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.346][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.401][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-28 19:49:10.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.433][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[2025-09-28 19:49:10.434][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-28 19:49:10.436][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:10.438][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:10.442][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-28 19:49:10.444][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:10.446][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:10.447][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:10.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.463][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.TRACE[2025-09-28 19:49:10.466][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.467][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.470][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.477][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.478][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.481][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.482][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.487][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.489][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.491][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.493][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.498][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:10.499][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:10.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.501][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:10.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:10.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.508][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.509][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.512][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.523][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.524][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.533][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.536][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.538][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.542][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.543][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.546][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.552][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.554][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.556][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.564][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.565][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.568][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.569][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.575][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:10.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:10.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.579][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.580][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:10.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:10.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.640][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-28 19:49:10.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:10.671][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-28 19:49:10.673][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:10.674][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:10.679][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-28 19:49:10.680][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:10.682][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:10.683][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:10.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:10.702][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.704][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.707][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.714][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.715][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.718][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.719][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.725][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.727][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.729][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.731][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.736][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:10.737][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:10.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.740][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:10.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:10.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.749][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.751][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.759][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.760][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:10.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.763][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.764][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.766][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.768][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.770][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:10.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.776][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.777][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.779][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:10.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.786][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.788][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.790][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.793][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:10.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:10.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.798][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.800][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.803][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:10.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:10.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.810][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:10.811][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:10.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.813][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:10.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:10.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:10.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.875][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-28 19:49:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:10.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.923][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[2025-09-28 19:49:10.924][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-28 19:49:10.926][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:10.928][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:10.933][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-28 19:49:10.934][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:10.936][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:10.938][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:10.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:10.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:10.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:10.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:10.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:10.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:10.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:10.958][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.960][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.963][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:10.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:10.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.970][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.972][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.975][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.977][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:10.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:10.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.983][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.985][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.987][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:10.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:10.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:10.995][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:10.996][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:10.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:10.998][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.005][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.006][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.009][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.015][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.017][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.019][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.021][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.023][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.025][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.026][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.032][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.033][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.036][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.042][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.044][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.046][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.055][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.057][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.059][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.064][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.068][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.070][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.137][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-28 19:49:11.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:11.170][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-28 19:49:11.172][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:11.174][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:11.179][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-28 19:49:11.180][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:11.182][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:11.184][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:11.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:11.204][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.206][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.209][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.217][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.218][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.221][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.222][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.228][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.231][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.238][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.239][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.242][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.249][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.251][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.253][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.261][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.262][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.266][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.268][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.271][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.272][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.278][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.279][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.282][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.289][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.291][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.293][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.301][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.302][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.305][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.307][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.312][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.314][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.316][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.317][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.377][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-28 19:49:11.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.408][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[2025-09-28 19:49:11.410][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-28 19:49:11.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:11.414][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:11.419][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-28 19:49:11.420][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:11.422][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:11.424][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:11.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:11.444][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.445][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.448][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.455][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.456][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.461][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.466][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.470][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.477][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.481][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.488][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.490][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.492][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.500][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.503][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.505][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.507][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.509][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.511][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.517][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.518][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.521][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.529][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.530][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.532][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.540][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.541][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.544][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.545][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.551][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.552][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.555][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.556][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.614][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-28 19:49:11.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:11.657][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-28 19:49:11.658][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:11.660][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:11.664][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-28 19:49:11.666][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:11.668][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:11.669][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:11.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:11.688][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.691][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.698][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.699][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.703][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.709][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.710][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.712][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.720][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.722][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.730][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.731][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.733][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.738][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.740][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.742][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.744][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.745][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.747][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.749][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.756][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.759][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.766][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.767][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.770][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:11.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:11.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.778][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.779][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.782][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.784][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:11.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:11.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.789][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.791][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.793][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:11.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:11.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:11.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.854][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-28 19:49:11.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:11.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:11.886][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-28 19:49:11.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:11.889][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:11.893][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-28 19:49:11.895][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:11.896][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:11.898][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:11.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:11.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:11.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:11.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:11.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:11.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:11.914][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[2025-09-28 19:49:11.917][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.919][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.921][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:11.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:11.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.927][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.929][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.931][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.933][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:11.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:11.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.939][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.942][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.945][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:11.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.950][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.952][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:11.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:11.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.961][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.963][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.965][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:11.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.972][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.973][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:11.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.976][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.978][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.979][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.981][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.983][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:11.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:11.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.993][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:11.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:11.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:11.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.000][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:12.001][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:12.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.004][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.006][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:12.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:12.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.012][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:12.013][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:12.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.015][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.017][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:12.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:12.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.022][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:12.023][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:12.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.026][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:12.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:12.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:12.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:12.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:12.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:12.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:12.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:12.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:12.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:12.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:12.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:12.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:12.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:12.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:12.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:12.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:12.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:12.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:12.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:12.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:12.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:12.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.085][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-28 19:49:12.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:12.133][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:12.137][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:12.140][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:12.142][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:12.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:12.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:12.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:12.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:12.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:12.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:12.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:12.933][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:12.937][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:12.940][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-28 19:49:12.942][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:12.946][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:12.950][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:12.953][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-28 19:49:12.955][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:12.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:12.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:12.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:12.973][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-28 19:49:12.974][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:12.977][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:12.981][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-28 19:49:12.983][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:12.985][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:12.986][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:12.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:12.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:12.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:12.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:12.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.005][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.009][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.018][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:13.019][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:13.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.022][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.024][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:13.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:13.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.029][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:13.030][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:13.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.033][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.034][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:13.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:13.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.040][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:13.041][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:13.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.043][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:13.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:13.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.055][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.062][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:13.063][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:13.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.066][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.068][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:13.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:13.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.074][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:13.076][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:13.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.078][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:13.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:13.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.085][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.089][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.097][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:13.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:13.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.100][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:13.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:13.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.108][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:13.109][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:13.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.112][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:13.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:13.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:13.120][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:13.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:13.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:13.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.181][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-28 19:49:13.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:13.247][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-28 19:49:13.249][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:13.250][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:13.255][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-28 19:49:13.256][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:13.258][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:13.260][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:13.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.291][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.293][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.295][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.302][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:13.303][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:13.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.305][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.307][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:13.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:13.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.312][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:13.313][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:13.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.315][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.316][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:13.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:13.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.322][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:13.324][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:13.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.325][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:13.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:13.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.332][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.334][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.336][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:13.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.343][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:13.344][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:13.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.347][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.348][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:13.350][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:13.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.352][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.354][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:13.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:13.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.359][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.360][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.362][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.369][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:13.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:13.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:13.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:13.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.381][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:13.382][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:13.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.384][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.386][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:13.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:13.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:13.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:13.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.395][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.396][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:13.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:13.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:13.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:13.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:13.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.452][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-28 19:49:13.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:13.497][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:13.501][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:13.504][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:13.506][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:13.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:13.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:13.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:13.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:13.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:13.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:13.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:13.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:13.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:13.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:13.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:13.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:14.186][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:14.189][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:14.193][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-28 19:49:14.194][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:14.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:14.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.846][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:14.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:14.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:14.862][biodb::testThat]
biodb.INFO [2025-09-28 19:49:14.872][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-28 19:49:14.873][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:14.875][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:14.879][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-28 19:49:14.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-28 19:49:14.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:14.923][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:14.926][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:14.929][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-28 19:49:14.930][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:14.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:14.961][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:14.963][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:14.966][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-28 19:49:14.967][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:14.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:14.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:14.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:14.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:14.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:14.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:14.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:14.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:14.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:14.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:14.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:14.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:15.043][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-28 19:49:15.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.070][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.072][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:15.073][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:15.074][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:15.075][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.080][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.083][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.085][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.086][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.088][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.093][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.094][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:15.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.122][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-28 19:49:15.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.147][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.148][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:15.149][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:15.150][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:15.151][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.152][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.154][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.156][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.158][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.161][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.163][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.164][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.167][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.169][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.170][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:15.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.186][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-28 19:49:15.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.211][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.212][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:15.213][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:15.214][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:15.215][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.216][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.217][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.225][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.227][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.228][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.229][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.230][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.232][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.233][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:15.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.247][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-28 19:49:15.248][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-28 19:49:15.249][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-28 19:49:15.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:15.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:15.375][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:15.377][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:15.380][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-28 19:49:15.381][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:15.385][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:15.389][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:15.392][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-28 19:49:15.392][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:15.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:15.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:15.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:15.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:15.518][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-28 19:49:15.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.576][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.577][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:15.578][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:15.579][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:15.580][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.585][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.591][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.592][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.593][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.594][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.598][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.600][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:15.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.615][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-28 19:49:15.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.683][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:15.685][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:15.686][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:15.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.692][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.694][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.696][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.698][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.712][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.718][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.720][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:15.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.737][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-28 19:49:15.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.763][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.765][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:15.766][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:15.767][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:15.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.774][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.780][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.782][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:15.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.786][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.788][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:15.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:15.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.805][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-28 19:49:15.806][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-28 19:49:15.808][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-28 19:49:15.820][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:15.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:15.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:15.831][biodb::testThat]
biodb.INFO [2025-09-28 19:49:15.841][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-28 19:49:15.843][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:15.844][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:15.848][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-28 19:49:15.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-28 19:49:15.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:15.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:15.895][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:15.898][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:15.900][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-28 19:49:15.902][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:15.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:15.938][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:15.941][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:15.944][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-28 19:49:15.945][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:15.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:15.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:15.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:15.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:15.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:15.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:15.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:15.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:15.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:15.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:15.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:15.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.012][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-28 19:49:16.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.043][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.044][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.045][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.048][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.051][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.053][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.057][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.060][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.064][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.065][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.082][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-28 19:49:16.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.109][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.110][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.111][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.113][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.114][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.119][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.124][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.127][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.130][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.132][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.133][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.164][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-28 19:49:16.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.202][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.205][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.211][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.216][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.219][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.226][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.227][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.261][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-28 19:49:16.262][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-28 19:49:16.263][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-28 19:49:16.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:16.319][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:16.322][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:16.325][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-28 19:49:16.326][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:16.330][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:16.334][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:16.337][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-28 19:49:16.338][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:16.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:16.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.435][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-28 19:49:16.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.463][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.464][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.465][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.466][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.469][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.472][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.476][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.477][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.479][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.483][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.484][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.502][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-28 19:49:16.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.516][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.TRACE[2025-09-28 19:49:16.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.528][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.529][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.530][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.532][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.533][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.537][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.542][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.545][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.547][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.548][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.550][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.551][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.568][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-28 19:49:16.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.595][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.597][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.598][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.599][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.604][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.606][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.607][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.610][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.611][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.612][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.613][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.617][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.618][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.634][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-28 19:49:16.635][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-28 19:49:16.636][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-28 19:49:16.646][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:16.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:16.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:16.659][biodb::testThat]
biodb.INFO [2025-09-28 19:49:16.660][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-28 19:49:16.662][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:16.663][biodb::testThat]
biodb.TRACE[2025-09-28 19:49:16.667][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-28 19:49:16.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-28 19:49:16.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:16.713][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:16.717][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:16.719][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-28 19:49:16.721][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:16.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-28 19:49:16.755][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:16.758][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:16.761][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-28 19:49:16.763][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:16.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:16.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:16.824][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-28 19:49:16.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.850][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.851][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.853][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.854][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.861][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.865][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.867][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.870][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.872][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.874][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.891][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-28 19:49:16.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.924][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.925][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.927][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.928][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.933][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.935][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.936][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.938][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.940][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.941][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.946][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.947][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:16.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.963][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-28 19:49:16.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:16.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:16.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:16.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:16.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:16.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:16.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:16.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.989][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.990][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:16.991][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:16.992][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:16.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:16.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:16.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:16.998][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:16.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.002][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.003][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.004][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.008][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.009][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:17.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.024][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-28 19:49:17.025][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-28 19:49:17.027][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-28 19:49:17.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:17.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:17.091][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:17.093][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:17.096][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-28 19:49:17.097][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:17.101][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:17.104][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:17.107][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-28 19:49:17.109][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:17.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:17.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:17.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:17.199][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-28 19:49:17.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.225][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.227][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:17.228][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:17.229][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:17.230][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.233][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.235][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.237][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.239][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.240][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.241][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.245][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.247][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:17.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.262][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-28 19:49:17.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.289][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:17.290][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:17.291][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:17.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.293][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.297][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.302][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.303][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.304][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.309][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.310][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:17.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.327][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-28 19:49:17.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.356][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-28 19:49:17.357][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-28 19:49:17.359][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-28 19:49:17.360][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.361][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.363][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.365][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.370][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.372][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-28 19:49:17.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.377][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.378][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-28 19:49:17.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.397][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-28 19:49:17.398][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-28 19:49:17.399][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-28 19:49:17.435][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:17.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-28 19:49:17.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:17.445][biodb::testThat]
biodb.INFO [2025-09-28 19:49:17.446][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-09-28 19:49:17.447][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:17.448][biodb::testThat]
biodb.DEBUG[2025-09-28 19:49:17.451][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-28 19:49:17.452][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:17.453][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:17.456][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-28 19:49:17.457][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:17.459][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:17.460][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:17.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.479][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.480][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.483][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.491][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:17.492][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:17.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.494][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.496][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:17.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:17.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.499][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.501][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:17.502][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:17.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.504][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.506][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.507][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.509][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.511][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.512][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.515][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.517][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:17.518][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:17.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.520][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.522][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.523][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.526][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.527][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:17.528][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:17.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.531][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.533][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:17.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:17.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.537][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.539][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:17.540][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:17.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.542][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:17.595][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-28 19:49:17.596][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-28 19:49:17.608][biodb::testThat]
biodb.INFO [2025-09-28 19:49:17.610][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-28 19:49:17.612][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:17.613][biodb::testThat]
biodb.DEBUG[2025-09-28 19:49:17.627][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-28 19:49:17.629][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-28 19:49:17.630][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-28 19:49:17.632][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:17.635][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-28 19:49:17.639][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-28 19:49:17.643][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-28 19:49:17.644][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:17.646][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-28 19:49:17.647][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:17.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.666][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.668][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.671][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.678][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:17.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:17.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.682][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.684][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:17.685][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:17.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.687][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.689][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:17.690][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:17.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.693][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.694][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.695][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.697][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.699][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.700][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.704][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:17.705][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:17.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.707][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.709][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.710][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.713][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.714][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:17.716][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:17.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.718][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.719][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:17.721][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:17.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.722][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.724][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:17.725][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:17.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.728][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:17.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.780][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.781][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.784][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.791][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:17.793][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:17.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.795][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.797][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:17.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:17.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.802][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:17.803][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:17.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.806][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.808][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:17.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:17.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.813][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:17.815][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:17.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.817][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:17.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:17.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.824][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.826][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.828][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.830][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.835][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.836][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.839][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.840][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:17.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.845][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:17.846][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:17.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.849][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.851][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:17.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:17.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.856][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:17.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.866][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:17.867][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:17.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.869][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:17.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:17.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.876][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:17.877][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:17.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.881][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:17.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.886][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:17.887][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:17.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.889][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.891][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:17.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:17.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:17.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:17.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:17.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:17.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:17.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:17.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:17.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:17.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:17.952][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.953][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.956][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:17.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:17.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.963][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:17.964][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:17.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.967][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:17.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:17.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.972][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:17.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:17.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.976][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.978][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:17.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:17.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:17.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:17.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.986][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:17.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:17.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.992][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:17.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:17.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:17.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:18.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.002][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:18.004][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:18.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.006][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.008][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:18.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:18.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.012][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:18.013][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:18.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.015][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.017][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:18.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.021][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:18.023][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:18.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.025][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:18.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:18.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.032][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:18.033][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:18.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.036][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.038][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:18.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:18.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.043][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:18.044][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:18.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.046][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.048][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:18.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:18.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.053][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:18.054][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:18.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.056][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.058][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:18.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:18.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:18.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:18.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:18.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:18.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:18.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:18.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:18.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:18.142][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-28 19:49:18.143][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-28 19:49:18.144][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-28 19:49:18.163][biodb::testThat]
biodb.INFO [2025-09-28 19:49:18.165][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-09-28 19:49:18.166][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:18.167][biodb::testThat]
biodb.INFO [2025-09-28 19:49:18.201][biodb::testThat]
biodb.INFO [2025-09-28 19:49:18.203][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-09-28 19:49:18.204][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:18.205][biodb::testThat]
biodb.INFO [2025-09-28 19:49:18.218][biodb::testThat]
biodb.INFO [2025-09-28 19:49:18.220][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-09-28 19:49:18.221][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:18.223][biodb::testThat]
sched.DEBUG[2025-09-28 19:49:18.226][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:18.229][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:18.235][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-28 19:49:18.236][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-28 19:49:18.253][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:18.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:18.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.258][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:18.259][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:18.261][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:18.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:18.263][ef$get] fields variable is a list.
biodb.INFO [2025-09-28 19:49:18.265][biodb::testThat]
biodb.INFO [2025-09-28 19:49:18.267][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-28 19:49:18.268][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:18.269][biodb::testThat]
biodb.ERROR[2025-09-28 19:49:18.286][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-28 19:49:18.307][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-28 19:49:18.324][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-28 19:49:18.326][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-28 19:49:18.327][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-28 19:49:18.329][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.331][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.333][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-28 19:49:18.344][biodb::testContext]
biodb.INFO [2025-09-28 19:49:18.346][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:18.347][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-28 19:49:18.349][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:18.350][biodb::testContext]
biodb.INFO [2025-09-28 19:49:18.353][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:18.355][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:18.360][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:18.361][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-28 19:49:18.363][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-28 19:49:18.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.366][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[2025-09-28 19:49:18.367][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-28 19:49:18.368][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-28 19:49:18.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.373][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-28 19:49:18.374][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-28 19:49:18.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.378][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-28 19:49:18.379][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-28 19:49:18.380][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-28 19:49:18.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.385][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-28 19:49:18.386][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-28 19:49:18.387][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-28 19:49:18.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.392][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-28 19:49:18.393][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-28 19:49:18.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.398][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-28 19:49:18.399][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-28 19:49:18.401][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-28 19:49:18.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.405][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[2025-09-28 19:49:18.406][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-28 19:49:18.407][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-28 19:49:18.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.411][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-28 19:49:18.412][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-28 19:49:18.413][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-28 19:49:18.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.416][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[2025-09-28 19:49:18.417][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:18.428][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-28 19:49:18.429][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-28 19:49:18.431][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-28 19:49:18.432][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-28 19:49:18.434][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-28 19:49:18.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.439][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-28 19:49:18.440][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-28 19:49:18.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.445][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-28 19:49:18.446][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-28 19:49:18.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.451][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-28 19:49:18.452][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-28 19:49:18.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.455][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-28 19:49:18.456][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-28 19:49:18.458][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-28 19:49:18.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.462][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:18.464][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-28 19:49:18.490][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-28 19:49:18.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.495][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-28 19:49:18.496][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-28 19:49:18.498][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-28 19:49:18.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.502][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-28 19:49:18.504][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.505][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-28 19:49:18.506][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.507][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:18.508][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.510][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.511][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.512][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.513][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:18.514][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:18.515][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.516][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-28 19:49:18.517][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:18.518][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.519][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.520][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:18.520][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:18.520][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:18.520][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:18.520][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:18.521][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:18.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.524][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:18.525][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.526][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.528][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.529][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.530][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:18.531][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:18.532][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.533][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.535][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-28 19:49:18.537][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.538][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:18.539][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.540][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:18.541][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.543][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.545][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.546][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:18.547][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:18.548][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.549][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-28 19:49:18.550][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:18.552][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.552][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.553][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:18.553][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:18.553][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:18.553][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:18.553][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:18.554][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:18.556][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.556][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.557][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:18.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.561][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.562][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.563][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:18.564][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:18.565][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.565][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.567][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-28 19:49:18.569][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.570][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-28 19:49:18.571][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.572][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:18.574][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.575][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.577][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.577][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:18.579][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:18.580][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.581][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-28 19:49:18.582][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:18.583][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.585][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.586][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.587][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:18.589][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.591][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:18.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.595][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.597][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:18.598][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:18.599][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.600][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.602][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-28 19:49:18.604][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.605][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:18.606][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.608][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:18.609][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.610][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.612][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.613][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.614][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:18.615][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:18.617][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.618][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-28 19:49:18.619][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:18.620][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.622][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:18.623][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.625][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:18.625][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.627][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.627][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:18.629][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:18.630][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:18.631][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:18.633][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.634][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:18.635][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:18.636][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:18.637][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:18.638][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:18.639][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.656][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[2025-09-28 19:49:18.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.662][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[2025-09-28 19:49:18.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.673][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[2025-09-28 19:49:18.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.685][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[2025-09-28 19:49:18.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.720][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[2025-09-28 19:49:18.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.725][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[2025-09-28 19:49:18.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.731][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[2025-09-28 19:49:18.732][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-28 19:49:18.734][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-28 19:49:18.736][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-28 19:49:18.737][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-28 19:49:18.739][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:18.741][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-28 19:49:18.743][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:18.745][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:18.747][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-28 19:49:18.749][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-28 19:49:18.750][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:18.752][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-28 19:49:18.754][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:18.757][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:18.759][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-28 19:49:18.761][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-28 19:49:18.763][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-28 19:49:18.766][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-28 19:49:18.768][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:18.770][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-28 19:49:18.772][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-28 19:49:18.774][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-28 19:49:18.776][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-28 19:49:18.778][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-28 19:49:18.780][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-28 19:49:18.781][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-28 19:49:18.783][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-28 19:49:18.785][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-28 19:49:18.787][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-28 19:49:18.789][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-28 19:49:18.790][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-28 19:49:18.792][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-28 19:49:18.793][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-28 19:49:18.795][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-28 19:49:18.796][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-28 19:49:18.797][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-28 19:49:18.799][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-28 19:49:18.801][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-28 19:49:18.802][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-28 19:49:18.804][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-28 19:49:18.806][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-28 19:49:18.808][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-28 19:49:18.810][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-28 19:49:18.812][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-28 19:49:18.814][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-28 19:49:18.816][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-28 19:49:18.817][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-28 19:49:18.819][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-28 19:49:18.821][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-28 19:49:18.823][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-28 19:49:18.825][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-28 19:49:18.826][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-28 19:49:18.828][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-28 19:49:18.830][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-28 19:49:18.832][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-28 19:49:18.833][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-28 19:49:18.835][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-28 19:49:18.836][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-28 19:49:18.838][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-28 19:49:18.839][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-28 19:49:18.841][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-28 19:49:18.843][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-28 19:49:18.845][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-28 19:49:18.847][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-28 19:49:18.848][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-28 19:49:18.849][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-28 19:49:18.851][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:18.853][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:18.855][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-28 19:49:18.857][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-28 19:49:18.859][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-28 19:49:18.861][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-28 19:49:18.862][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-28 19:49:18.864][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-28 19:49:18.866][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-28 19:49:18.868][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-28 19:49:18.870][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-28 19:49:18.872][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-28 19:49:18.874][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-28 19:49:18.876][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-28 19:49:18.878][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-28 19:49:18.879][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-28 19:49:18.881][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-28 19:49:18.883][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-28 19:49:18.886][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:18.887][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:18.888][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.891][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.927][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[2025-09-28 19:49:18.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.933][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[2025-09-28 19:49:18.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.976][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[2025-09-28 19:49:18.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.984][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[2025-09-28 19:49:18.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.991][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[2025-09-28 19:49:18.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:18.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:18.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:18.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:18.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:18.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:18.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:18.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.036][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:19.038][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-28 19:49:19.041][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.042][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.043][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.045][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:19.046][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.047][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.048][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.049][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-28 19:49:19.051][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-28 19:49:19.052][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:19.053][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.055][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-28 19:49:19.056][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-28 19:49:19.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-28 19:49:19.058][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.060][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:19.060][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:19.060][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:19.061][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-28 19:49:19.062][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.063][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.064][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:19.066][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.067][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.068][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.069][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-28 19:49:19.069][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-28 19:49:19.071][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:19.072][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:19.073][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.074][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-28 19:49:19.074][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-28 19:49:19.076][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:19.079][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:19.081][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-28 19:49:19.082][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:19.084][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:19.086][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:19.090][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-28 19:49:19.095][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-28 19:49:19.097][biodb::testThat]
biodb.INFO [2025-09-28 19:49:19.098][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-09-28 19:49:19.099][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:19.101][biodb::testThat]
sched.DEBUG[2025-09-28 19:49:19.104][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-28 19:49:19.106][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.111][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-28 19:49:19.112][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:19.116][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".
fscache.INFO [2025-09-28 19:49:19.120][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.122][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-28 19:49:19.124][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:19.143][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".
fscache.INFO [2025-09-28 19:49:19.146][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.149][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-28 19:49:19.150][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:19.210][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".
fscache.INFO [2025-09-28 19:49:19.213][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.215][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-28 19:49:19.217][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:19.235][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".
fscache.INFO [2025-09-28 19:49:19.239][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.241][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-28 19:49:19.243][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:19.276][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".
fscache.INFO [2025-09-28 19:49:19.280][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.282][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-28 19:49:19.284][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:19.301][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".
fscache.INFO [2025-09-28 19:49:19.304][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.307][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-28 19:49:19.308][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:19.325][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".
fscache.INFO [2025-09-28 19:49:19.329][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.341][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-28 19:49:19.342][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.355][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.INFO [2025-09-28 19:49:19.364][biodb::testThat]
biodb.INFO [2025-09-28 19:49:19.365][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-09-28 19:49:19.367][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:19.368][biodb::testThat]
sched.DEBUG[2025-09-28 19:49:19.372][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".
fscache.INFO [2025-09-28 19:49:19.375][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.378][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-28 19:49:19.379][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-28 19:49:19.396][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".
fscache.INFO [2025-09-28 19:49:19.399][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:19.402][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-28 19:49:19.404][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:19.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:19.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-28 19:49:19.427][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-28 19:49:19.429][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-28 19:49:19.430][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-28 19:49:19.431][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.433][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.435][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-28 19:49:19.440][biodb::testContext]
biodb.INFO [2025-09-28 19:49:19.441][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:19.443][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-28 19:49:19.444][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:19.445][biodb::testContext]
biodb.INFO [2025-09-28 19:49:19.447][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:19.449][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:19.454][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:19.455][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-28 19:49:19.457][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-28 19:49:19.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.462][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-28 19:49:19.463][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-28 19:49:19.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.466][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[2025-09-28 19:49:19.467][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-28 19:49:19.468][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-28 19:49:19.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.473][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-28 19:49:19.474][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-28 19:49:19.476][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-28 19:49:19.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.479][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-28 19:49:19.481][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-28 19:49:19.482][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-28 19:49:19.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.487][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-28 19:49:19.488][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-28 19:49:19.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.492][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-28 19:49:19.494][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-28 19:49:19.495][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-28 19:49:19.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.499][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-28 19:49:19.500][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-28 19:49:19.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.505][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-28 19:49:19.506][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-28 19:49:19.508][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-28 19:49:19.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.513][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:19.514][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-28 19:49:19.515][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-28 19:49:19.517][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-28 19:49:19.518][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-28 19:49:19.519][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-28 19:49:19.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.524][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-28 19:49:19.525][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-28 19:49:19.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.530][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-28 19:49:19.532][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-28 19:49:19.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.536][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-28 19:49:19.537][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-28 19:49:19.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.541][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-28 19:49:19.542][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-28 19:49:19.543][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-28 19:49:19.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.548][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:19.549][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-28 19:49:19.575][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-28 19:49:19.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.580][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-28 19:49:19.581][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-28 19:49:19.583][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-28 19:49:19.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.587][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-28 19:49:19.590][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.591][self$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[2025-09-28 19:49:19.592][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.594][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:19.595][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.596][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.598][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.599][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.600][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:19.602][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:19.603][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.604][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-28 19:49:19.606][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:19.607][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.608][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.610][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:19.610][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:19.610][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:19.610][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:19.610][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:19.611][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:19.613][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.614][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.615][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:19.616][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.618][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.619][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.620][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.622][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:19.622][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:19.623][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.625][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.626][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-28 19:49:19.628][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.630][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:19.631][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.633][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:19.634][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.635][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.636][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.638][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:19.640][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:19.640][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.642][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-28 19:49:19.642][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:19.644][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.645][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.646][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:19.646][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:19.646][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:19.646][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:19.646][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:19.648][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:19.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.652][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:19.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.656][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.657][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.658][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:19.659][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:19.660][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.661][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.663][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-28 19:49:19.664][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.666][self$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[2025-09-28 19:49:19.667][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.668][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:19.669][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.670][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.671][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.673][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.674][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:19.675][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:19.677][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.678][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-28 19:49:19.680][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:19.681][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.682][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.683][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.684][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:19.686][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.687][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.688][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:19.689][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.691][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.692][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.693][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.695][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:19.696][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:19.697][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.698][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.700][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-28 19:49:19.702][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.703][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:19.705][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.706][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:19.707][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.708][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.710][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.711][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.712][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:19.713][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:19.715][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.716][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-28 19:49:19.717][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:19.718][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.720][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:19.721][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.722][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:19.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.724][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.725][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:19.726][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:19.727][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:19.728][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:19.730][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.731][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:19.732][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:19.733][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:19.735][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:19.736][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:19.737][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.788][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[2025-09-28 19:49:19.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.794][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[2025-09-28 19:49:19.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.828][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-28 19:49:19.830][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-28 19:49:19.832][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-28 19:49:19.842][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-28 19:49:19.844][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:19.846][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-28 19:49:19.848][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:19.849][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:19.852][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-28 19:49:19.854][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-28 19:49:19.855][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:19.857][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-28 19:49:19.859][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:19.861][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:19.863][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-28 19:49:19.865][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-28 19:49:19.866][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-28 19:49:19.868][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-28 19:49:19.870][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:19.872][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-28 19:49:19.874][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-28 19:49:19.875][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-28 19:49:19.877][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-28 19:49:19.878][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-28 19:49:19.880][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-28 19:49:19.882][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-28 19:49:19.884][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-28 19:49:19.886][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-28 19:49:19.887][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-28 19:49:19.889][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-28 19:49:19.891][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-28 19:49:19.893][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-28 19:49:19.894][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-28 19:49:19.896][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-28 19:49:19.897][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-28 19:49:19.899][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-28 19:49:19.900][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-28 19:49:19.902][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-28 19:49:19.903][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-28 19:49:19.905][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-28 19:49:19.907][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-28 19:49:19.909][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-28 19:49:19.910][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-28 19:49:19.912][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-28 19:49:19.913][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-28 19:49:19.915][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-28 19:49:19.917][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-28 19:49:19.919][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-28 19:49:19.921][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-28 19:49:19.923][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-28 19:49:19.924][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-28 19:49:19.926][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-28 19:49:19.928][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-28 19:49:19.930][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-28 19:49:19.932][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-28 19:49:19.933][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-28 19:49:19.935][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-28 19:49:19.937][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-28 19:49:19.939][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-28 19:49:19.941][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-28 19:49:19.942][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-28 19:49:19.944][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-28 19:49:19.945][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-28 19:49:19.947][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-28 19:49:19.949][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-28 19:49:19.951][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-28 19:49:19.953][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:19.954][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:19.956][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-28 19:49:19.957][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-28 19:49:19.959][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-28 19:49:19.961][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-28 19:49:19.962][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-28 19:49:19.964][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-28 19:49:19.965][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-28 19:49:19.967][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-28 19:49:19.969][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-28 19:49:19.971][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-28 19:49:19.973][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-28 19:49:19.974][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-28 19:49:19.976][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-28 19:49:19.978][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-28 19:49:19.979][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-28 19:49:19.981][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-28 19:49:19.983][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:19.984][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:19.986][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.988][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:19.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:19.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:19.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:19.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:19.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:19.996][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[2025-09-28 19:49:19.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:19.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.060][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[2025-09-28 19:49:20.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.120][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:20.123][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-28 19:49:20.125][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.126][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.127][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.129][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:20.130][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.131][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.132][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.133][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-28 19:49:20.135][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-28 19:49:20.136][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:20.137][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.138][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-28 19:49:20.140][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-28 19:49:20.141][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-28 19:49:20.143][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.144][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:20.144][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:20.144][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:20.145][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-28 19:49:20.146][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.149][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:20.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.151][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.153][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.154][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-28 19:49:20.154][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-28 19:49:20.155][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:20.157][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:20.158][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.159][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-28 19:49:20.159][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-28 19:49:20.160][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:20.162][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:20.163][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-28 19:49:20.165][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:20.167][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:20.169][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:20.173][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-28 19:49:20.178][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-28 19:49:20.179][biodb::testThat]
biodb.INFO [2025-09-28 19:49:20.181][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-28 19:49:20.182][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:20.183][biodb::testThat]
sched.DEBUG[2025-09-28 19:49:20.186][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-28 19:49:20.190][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:20.195][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-28 19:49:20.197][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:20.223][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-28 19:49:20.227][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:20.230][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-28 19:49:20.232][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-28 19:49:20.244][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-28 19:49:20.245][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-28 19:49:20.247][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-28 19:49:20.248][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.250][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.252][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-28 19:49:20.257][biodb::testContext]
biodb.INFO [2025-09-28 19:49:20.259][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:20.260][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-28 19:49:20.262][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-28 19:49:20.263][biodb::testContext]
biodb.INFO [2025-09-28 19:49:20.266][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:20.268][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:20.273][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:20.275][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-28 19:49:20.276][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-28 19:49:20.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.282][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-28 19:49:20.283][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-28 19:49:20.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.288][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-28 19:49:20.290][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-28 19:49:20.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.295][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-28 19:49:20.296][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-28 19:49:20.297][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-28 19:49:20.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.302][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-28 19:49:20.303][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-28 19:49:20.304][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-28 19:49:20.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.310][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-28 19:49:20.311][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-28 19:49:20.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.325][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-28 19:49:20.326][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-28 19:49:20.328][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-28 19:49:20.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.333][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-28 19:49:20.334][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-28 19:49:20.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.339][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-28 19:49:20.340][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-28 19:49:20.341][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-28 19:49:20.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.346][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:20.347][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-28 19:49:20.348][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-28 19:49:20.350][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-28 19:49:20.351][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-28 19:49:20.353][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-28 19:49:20.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.358][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-28 19:49:20.359][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-28 19:49:20.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.363][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[2025-09-28 19:49:20.364][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-28 19:49:20.365][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-28 19:49:20.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.370][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-28 19:49:20.371][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-28 19:49:20.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.376][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-28 19:49:20.377][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-28 19:49:20.378][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-28 19:49:20.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.382][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-28 19:49:20.384][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-28 19:49:20.409][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-28 19:49:20.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.413][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[2025-09-28 19:49:20.414][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-28 19:49:20.416][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-28 19:49:20.417][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-28 19:49:20.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.423][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-28 19:49:20.425][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.426][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-28 19:49:20.427][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.429][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:20.430][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.431][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.432][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.434][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.435][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:20.436][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:20.438][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.441][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-28 19:49:20.442][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:20.443][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.444][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.446][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:20.446][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:20.446][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:20.446][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:20.446][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:20.447][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:20.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.451][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:20.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.453][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.454][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.456][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.457][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:20.458][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:20.459][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.460][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.462][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-28 19:49:20.464][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.465][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:20.466][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.467][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:20.469][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.470][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.471][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.473][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.474][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:20.475][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:20.477][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.478][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-28 19:49:20.480][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:20.481][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.482][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.483][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:20.483][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:20.483][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:20.483][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-28 19:49:20.483][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-28 19:49:20.484][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:20.485][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.486][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.487][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:20.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.491][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.492][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.493][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:20.494][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:20.495][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.496][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.497][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-28 19:49:20.499][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.501][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-28 19:49:20.502][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.504][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:20.505][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.506][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.507][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.508][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.509][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-28 19:49:20.510][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:20.511][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.513][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-28 19:49:20.514][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:20.515][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.516][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.517][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.518][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:20.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.521][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:20.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.525][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.526][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.527][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:20.528][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:20.529][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.531][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.532][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-28 19:49:20.534][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.535][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-28 19:49:20.536][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.537][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:20.538][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.540][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.541][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.542][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.543][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-28 19:49:20.544][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:20.545][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.547][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-28 19:49:20.547][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:20.549][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.550][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.551][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.552][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-28 19:49:20.553][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.556][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:20.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.560][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.561][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.563][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:20.564][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:20.565][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.567][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-28 19:49:20.569][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:20.570][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.571][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[2025-09-28 19:49:20.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.587][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[2025-09-28 19:49:20.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.603][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[2025-09-28 19:49:20.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.655][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[2025-09-28 19:49:20.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.661][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[2025-09-28 19:49:20.662][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-28 19:49:20.664][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-28 19:49:20.666][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-28 19:49:20.668][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-28 19:49:20.670][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:20.672][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-28 19:49:20.674][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:20.676][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:20.678][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-28 19:49:20.680][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-28 19:49:20.682][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:20.683][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-28 19:49:20.685][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-28 19:49:20.687][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-28 19:49:20.688][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-28 19:49:20.690][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-28 19:49:20.692][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-28 19:49:20.694][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-28 19:49:20.696][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:20.698][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-28 19:49:20.699][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-28 19:49:20.701][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-28 19:49:20.702][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-28 19:49:20.703][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-28 19:49:20.705][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-28 19:49:20.706][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-28 19:49:20.708][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-28 19:49:20.710][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-28 19:49:20.712][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-28 19:49:20.714][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-28 19:49:20.715][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-28 19:49:20.716][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-28 19:49:20.718][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-28 19:49:20.720][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-28 19:49:20.721][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-28 19:49:20.722][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-28 19:49:20.724][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-28 19:49:20.725][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-28 19:49:20.727][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-28 19:49:20.729][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-28 19:49:20.730][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-28 19:49:20.732][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-28 19:49:20.733][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-28 19:49:20.735][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-28 19:49:20.737][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-28 19:49:20.738][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-28 19:49:20.740][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-28 19:49:20.741][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-28 19:49:20.743][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-28 19:49:20.745][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-28 19:49:20.747][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-28 19:49:20.749][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-28 19:49:20.751][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-28 19:49:20.752][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-28 19:49:20.754][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-28 19:49:20.756][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-28 19:49:20.758][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-28 19:49:20.760][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-28 19:49:20.762][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-28 19:49:20.763][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-28 19:49:20.765][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-28 19:49:20.767][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-28 19:49:20.769][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-28 19:49:20.771][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-28 19:49:20.773][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-28 19:49:20.775][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-28 19:49:20.777][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:20.779][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:20.781][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-28 19:49:20.783][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-28 19:49:20.784][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-28 19:49:20.786][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-28 19:49:20.788][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-28 19:49:20.790][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-28 19:49:20.792][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-28 19:49:20.794][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-28 19:49:20.796][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-28 19:49:20.797][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-28 19:49:20.808][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-28 19:49:20.810][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-28 19:49:20.812][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-28 19:49:20.814][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-28 19:49:20.816][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-28 19:49:20.818][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-28 19:49:20.821][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-09-28 19:49:20.822][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-28 19:49:20.824][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.825][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.849][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[2025-09-28 19:49:20.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.864][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[2025-09-28 19:49:20.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.872][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[2025-09-28 19:49:20.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.880][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[2025-09-28 19:49:20.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.927][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[2025-09-28 19:49:20.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.935][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[2025-09-28 19:49:20.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-28 19:49:20.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:20.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:20.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:20.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:20.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:20.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-28 19:49:20.957][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-28 19:49:20.959][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-28 19:49:20.961][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.963][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.964][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.966][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-28 19:49:20.967][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.968][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.970][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.971][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-28 19:49:20.972][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-28 19:49:20.973][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-28 19:49:20.975][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.976][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-28 19:49:20.978][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-28 19:49:20.979][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-28 19:49:20.981][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-28 19:49:20.982][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-28 19:49:20.982][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-28 19:49:20.982][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-28 19:49:20.983][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-28 19:49:20.985][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.986][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.987][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-28 19:49:20.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-28 19:49:20.990][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-28 19:49:20.991][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-28 19:49:20.992][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-28 19:49:20.992][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-28 19:49:20.994][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-28 19:49:20.995][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-28 19:49:20.996][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-28 19:49:20.997][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-28 19:49:20.997][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-28 19:49:20.998][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-28 19:49:21.000][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-28 19:49:21.002][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-28 19:49:21.004][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-28 19:49:21.006][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-28 19:49:21.008][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-28 19:49:21.013][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-28 19:49:21.019][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-28 19:49:21.021][biodb::testThat]
biodb.INFO [2025-09-28 19:49:21.022][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-28 19:49:21.023][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-28 19:49:21.025][biodb::testThat]
sched.DEBUG[2025-09-28 19:49:21.028][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-28 19:49:21.030][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:21.036][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-28 19:49:21.038][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-28 19:49:21.042][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".
fscache.INFO [2025-09-28 19:49:21.046][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-28 19:49:21.049][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-28 19:49:21.051][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-28 19:49:21.057][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-28 19:49:21.061][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-28 19:49:21.063][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-28 19:49:21.071][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-28 19:49:21.074][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-28 19:49:21.075][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-28 19:49:21.077][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-28 19:49:21.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-28 19:49:21.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:21.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:21.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:21.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:21.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:21.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-28 19:49:21.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.101][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.104][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.112][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:21.113][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:21.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.115][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.117][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-28 19:49:21.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-28 19:49:21.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.123][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:21.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:21.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.126][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-28 19:49:21.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-28 19:49:21.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.132][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-28 19:49:21.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-28 19:49:21.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.135][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.137][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-28 19:49:21.138][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-28 19:49:21.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.140][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.142][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:21.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:21.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.146][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.148][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:21.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-28 19:49:21.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.152][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:21.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:21.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.155][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-28 19:49:21.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-28 19:49:21.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:21.163][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:21.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.166][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-28 19:49:21.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.172][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:21.173][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:21.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.176][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-28 19:49:21.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-28 19:49:21.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.183][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:21.184][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:21.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.186][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-28 19:49:21.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-28 19:49:21.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:21.196][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:21.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.198][ef$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.200][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-28 19:49:21.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-28 19:49:21.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:21.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:21.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:21.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:21.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-28 19:49:21.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-28 19:49:21.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-28 19:49:21.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-28 19:49:21.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-28 19:49:21.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-28 19:49:21.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-28 19:49:21.255][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-28 19:49:21.261][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-28 19:49:21.262][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-28 19:49:21.263][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-28 19:49:21.265][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-28 19:49:21.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-28 19:49:21.267][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-28 19:49:21.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-28 19:49:21.269][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-28 19:49:21.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
!is.na(content) is not TRUE
`actual`:
`expected`: TRUE
Backtrace:
▆
1. ├─base::do.call(fct, params)
2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
3. └─testthat::expect_true(!is.na(content))
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
nchar(content) > 0 is not TRUE
`actual`:
`expected`: TRUE
Backtrace:
▆
1. ├─base::do.call(fct, params)
2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
3. └─testthat::expect_true(nchar(content) > 0)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
Error: Test failures
Execution halted
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 2.617 | 1.126 | 3.868 | |
| ChebiEntry | 0.379 | 0.022 | 0.415 | |