Pierrick Roger
| Snapshot Date: 2024-11-27 13:40 -0500 (Wed, 27 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: 686a27c |
| git_last_commit_date: 2024-10-29 11:04:36 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-11-28 12:15 -0500 (Thu, 28 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4748 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4459 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4398 |
| 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 200/2272 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.13.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.13.0 |
| Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbChebi_1.13.0.tar.gz |
| StartedAt: 2024-11-27 22:32:03 -0500 (Wed, 27 Nov 2024) |
| EndedAt: 2024-11-27 22:37:19 -0500 (Wed, 27 Nov 2024) |
| EllapsedTime: 316.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbChebi_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck'
* using R Under development (unstable) (2024-10-26 r87273 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.2.0
GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbChebi/DESCRIPTION' ... OK
* this is package 'biodbChebi' version '1.13.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbChebi' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ChebiConn 3.69 1.75 67.3
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library' * installing *source* package 'biodbChebi' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-11-27 22:35:12.557][biodb::testContext]
biodb.INFO [2024-11-27 22:35:12.560][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:35:12.561][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-11-27 22:35:12.562][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:35:12.564][biodb::testContext]
biodb.INFO [2024-11-27 22:35:12.571][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:35:12.573][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-27 22:35:12.582][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:35:12.583][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-27 22:35:12.585][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-27 22:35:12.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.590][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-27 22:35:12.609][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-27 22:35:12.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.614][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-27 22:35:12.616][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-27 22:35:12.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.621][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-27 22:35:12.622][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-27 22:35:12.623][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-27 22:35:12.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.627][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[2024-11-27 22:35:12.628][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-27 22:35:12.630][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-27 22:35:12.632][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-27 22:35:12.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.638][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-27 22:35:12.640][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-27 22:35:12.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.645][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-27 22:35:12.646][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-27 22:35:12.647][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-27 22:35:12.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.653][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-27 22:35:12.654][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-27 22:35:12.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.659][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-27 22:35:12.661][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-27 22:35:12.662][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-27 22:35:12.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.667][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:35:12.668][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-27 22:35:12.670][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-27 22:35:12.671][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-27 22:35:12.672][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-27 22:35:12.674][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-27 22:35:12.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.678][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.DEBUG[2024-11-27 22:35:12.679][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-27 22:35:12.680][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-27 22:35:12.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.685][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-27 22:35:12.687][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-27 22:35:12.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.691][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-27 22:35:12.693][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-27 22:35:12.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.708][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-27 22:35:12.710][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-27 22:35:12.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.714][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-27 22:35:12.715][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-27 22:35:12.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.719][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:35:12.720][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-27 22:35:12.724][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-27 22:35:12.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.731][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-27 22:35:12.733][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-27 22:35:12.735][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-27 22:35:12.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.742][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-27 22:35:12.770][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.790][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-27 22:35:12.792][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.794][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:35:12.796][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.798][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.800][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.801][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.803][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:35:12.804][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:35:12.805][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.806][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-27 22:35:12.807][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:35:12.809][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.810][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.811][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:35:12.811][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:35:12.811][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:35:12.811][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:35:12.811][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:35:12.812][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:35:12.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.816][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:35:12.817][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.818][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.820][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.821][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.822][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:35:12.823][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:35:12.824][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.825][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.827][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-27 22:35:12.829][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.830][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:35:12.831][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.832][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:35:12.834][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.835][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.836][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.837][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.838][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:35:12.839][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:35:12.841][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.842][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-27 22:35:12.843][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:35:12.844][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.845][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.847][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:35:12.847][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:35:12.847][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:35:12.847][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:35:12.847][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:35:12.848][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:35:12.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:35:12.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.855][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.856][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:35:12.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:35:12.859][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.860][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.862][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-27 22:35:12.864][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.865][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-27 22:35:12.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:35:12.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.871][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.872][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.873][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:35:12.874][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:35:12.876][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.877][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-27 22:35:12.878][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:35:12.879][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.880][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.881][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.883][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:35:12.884][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.885][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.886][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:35:12.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.889][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.891][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.892][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:35:12.893][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:35:12.894][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.895][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.897][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-27 22:35:12.898][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.900][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:35:12.901][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:35:12.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.906][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.907][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.908][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:35:12.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:35:12.910][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.912][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-27 22:35:12.913][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:35:12.914][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.915][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:12.916][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.917][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:35:12.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.921][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:35:12.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:12.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:12.924][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:35:12.925][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.926][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:35:12.927][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:35:12.929][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:12.930][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:35:12.933][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:35:12.934][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.935][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[2024-11-27 22:35:12.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.946][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[2024-11-27 22:35:12.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.957][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[2024-11-27 22:35:12.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:12.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:12.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:12.996][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[2024-11-27 22:35:12.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:12.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:12.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.036][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[2024-11-27 22:35:13.037][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-27 22:35:13.041][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-27 22:35:13.043][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-27 22:35:13.044][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-27 22:35:13.046][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:35:13.047][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:35:13.049][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-27 22:35:13.051][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-27 22:35:13.052][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-27 22:35:13.054][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:35:13.055][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:35:13.057][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-27 22:35:13.058][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-27 22:35:13.060][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-27 22:35:13.062][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-27 22:35:13.063][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:35:13.065][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-27 22:35:13.066][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-27 22:35:13.068][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:35:13.069][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-27 22:35:13.071][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-27 22:35:13.073][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-27 22:35:13.074][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-27 22:35:13.076][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-27 22:35:13.078][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-27 22:35:13.079][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-27 22:35:13.081][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-27 22:35:13.082][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-27 22:35:13.084][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-27 22:35:13.086][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-27 22:35:13.087][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-27 22:35:13.089][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-27 22:35:13.090][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-27 22:35:13.092][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-27 22:35:13.094][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-27 22:35:13.096][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-27 22:35:13.098][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-27 22:35:13.099][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-27 22:35:13.101][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-27 22:35:13.102][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-27 22:35:13.104][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-27 22:35:13.106][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-27 22:35:13.107][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-27 22:35:13.109][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-27 22:35:13.110][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-27 22:35:13.112][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-27 22:35:13.114][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-27 22:35:13.117][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-27 22:35:13.119][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-27 22:35:13.121][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-27 22:35:13.123][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-27 22:35:13.125][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-27 22:35:13.128][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-27 22:35:13.130][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-27 22:35:13.132][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-27 22:35:13.134][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-27 22:35:13.137][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-27 22:35:13.139][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-27 22:35:13.141][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-27 22:35:13.143][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-27 22:35:13.145][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-27 22:35:13.146][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-27 22:35:13.148][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-27 22:35:13.150][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-27 22:35:13.151][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-27 22:35:13.153][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-27 22:35:13.154][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:35:13.156][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:35:13.157][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-27 22:35:13.159][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-27 22:35:13.160][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-27 22:35:13.162][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-27 22:35:13.163][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-27 22:35:13.165][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-27 22:35:13.166][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-27 22:35:13.168][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-27 22:35:13.169][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-27 22:35:13.171][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-27 22:35:13.173][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-27 22:35:13.174][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-27 22:35:13.176][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-27 22:35:13.177][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-27 22:35:13.179][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-27 22:35:13.201][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-27 22:35:13.204][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:35:13.207][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:35:13.208][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.210][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.280][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[2024-11-27 22:35:13.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.332][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[2024-11-27 22:35:13.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:35:13.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:13.356][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-27 22:35:13.365][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-27 22:35:13.368][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:13.369][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-27 22:35:13.370][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:13.371][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:35:13.372][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:13.373][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:35:13.374][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:13.376][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-27 22:35:13.377][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-27 22:35:13.378][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:35:13.380][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:13.382][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-27 22:35:13.384][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-27 22:35:13.386][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-27 22:35:13.388][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-27 22:35:13.390][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:35:13.390][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:35:13.390][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:35:13.392][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-27 22:35:13.393][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:13.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:13.396][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:35:13.398][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:35:13.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:35:13.402][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:35:13.404][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:13.404][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-27 22:35:13.406][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:35:13.407][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:35:13.409][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-27 22:35:13.411][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-27 22:35:13.411][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-27 22:35:13.421][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:35:13.424][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:35:13.427][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-27 22:35:13.430][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:35:13.433][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:35:13.436][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:35:13.470][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-27 22:35:13.472][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-27 22:35:13.478][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-27 22:35:13.484][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-27 22:35:13.490][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:35:13.492][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:35:13.495][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-27 22:35:13.497][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-27 22:35:13.514][biodb::testThat]
biodb.INFO [2024-11-27 22:35:13.515][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-11-27 22:35:13.517][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:13.518][biodb::testThat]
biodb.TRACE[2024-11-27 22:35:13.542][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-11-27 22:35:13.545][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:13.548][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:13.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:13.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:13.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:13.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:13.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:13.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:13.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:13.590][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.601][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.604][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.621][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:13.622][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:13.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.624][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.647][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:13.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:13.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.653][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:13.654][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:13.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.656][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.658][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:13.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:13.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.663][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:13.664][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:13.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.666][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:13.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.673][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.674][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.684][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:13.685][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:13.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.687][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.689][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:13.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:13.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.694][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:13.696][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:13.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.700][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:13.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:13.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.705][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:13.706][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:13.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.709][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:13.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:13.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.716][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:13.718][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:13.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.720][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:13.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:13.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.728][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:13.730][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:13.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.732][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.734][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:13.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:13.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:13.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:13.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.743][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:13.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:13.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:13.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:13.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:13.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:13.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:13.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:13.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:13.869][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-11-27 22:35:13.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:13.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:13.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:13.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:13.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:13.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:13.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:13.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:13.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:13.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.948][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:35:13.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:35:13.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:35:13.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:35:13.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.958][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-27 22:35:13.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-27 22:35:13.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.963][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-27 22:35:13.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-27 22:35:13.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:13.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:13.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:13.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:13.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.119][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.124][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.163][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.164][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.167][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:14.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:14.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:14.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:14.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:14.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:14.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:14.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.206][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:14.208][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:14.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.210][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:14.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:14.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:14.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:14.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.234][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:14.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:14.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.240][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:14.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:14.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.249][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:14.251][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:14.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.255][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.257][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:14.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:14.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.299][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.300][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.303][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.347][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.349][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.351][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.438][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:14.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:14.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.444][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:14.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:14.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:14.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:14.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.460][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:14.461][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:14.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.463][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.464][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:14.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:14.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.491][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.499][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.507][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.515][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.517][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.520][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.544][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.549][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.554][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.559][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.561][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.563][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.564][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.584][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:14.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.589][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:14.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:14.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.594][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:14.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:14.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.599][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:14.601][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:14.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.605][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:14.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:14.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.654][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.658][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:14.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:14.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:14.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:14.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:14.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:14.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:14.705][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:14.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.708][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:14.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:14.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.732][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:14.734][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:14.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.736][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.749][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:14.750][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:14.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.753][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.760][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:14.761][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:14.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.764][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.777][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:14.778][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:14.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.781][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.797][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.799][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:14.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.802][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.811][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.812][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:14.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.830][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.831][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:14.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.835][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.847][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.848][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:14.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.851][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.860][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:14.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.864][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.876][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:14.878][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:14.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:14.891][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:14.893][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:14.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:14.895][ef$get] fields variable is a list.
biodb.INFO [2024-11-27 22:35:14.913][biodb::testThat]
biodb.INFO [2024-11-27 22:35:14.914][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-27 22:35:14.915][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:14.916][biodb::testThat]
biodb.DEBUG[2024-11-27 22:35:14.933][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-11-27 22:35:14.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:14.952][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-11-27 22:35:14.956][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:14.960][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-11-27 22:35:14.962][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:14.997][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:15.000][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:15.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:15.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:15.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:15.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:15.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:15.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:15.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:15.025][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.027][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.030][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.067][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:15.069][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:15.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.073][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.075][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:15.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:15.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.082][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:15.084][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:15.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.087][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.089][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:15.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:15.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.096][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:15.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:15.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.102][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:15.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:15.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.126][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:15.127][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:15.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.130][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:15.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:15.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.141][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:15.143][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:15.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.147][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.149][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:15.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:15.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.157][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:15.159][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:15.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.163][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.165][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:15.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:15.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.173][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:15.175][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:15.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.178][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:15.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:15.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.188][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:15.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:15.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.192][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:15.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:15.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.199][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:15.200][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:15.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.203][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.205][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:15.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:15.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.210][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:15.211][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:15.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.214][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:15.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:15.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:15.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:15.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:15.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:15.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:15.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:15.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:15.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:15.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:15.270][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-11-27 22:35:15.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-27 22:35:15.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-27 22:35:15.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-27 22:35:15.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-27 22:35:15.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-27 22:35:15.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-27 22:35:15.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:35:15.304][biodb::testThat]
biodb.INFO [2024-11-27 22:35:15.305][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-27 22:35:15.306][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:15.308][biodb::testThat]
biodb.TRACE[2024-11-27 22:35:15.311][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:15.313][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:15.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.315][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:15.317][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-11-27 22:35:15.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:15.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:15.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:15.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:15.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:15.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:15.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:15.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:15.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:15.386][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-11-27 22:35:15.396][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-27 22:35:15.415][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:35:15.430][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-27 22:35:15.432][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:15.435][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-27 22:35:15.457][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:35:15.462][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:15.463][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:15.465][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:35:16.212][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:35:16.868][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:16.871][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-11-27 22:35:16.885][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-11-27 22:35:16.889][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-11-27 22:35:16.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:16.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:16.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:16.935][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:16.936][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:16.937][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:16.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:16.939][ef$get] fields variable is a list.
biodb.INFO [2024-11-27 22:35:16.946][biodb::testThat]
biodb.INFO [2024-11-27 22:35:16.948][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-11-27 22:35:16.949][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:16.950][biodb::testThat]
biodb.TRACE[2024-11-27 22:35:17.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:17.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:17.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:17.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:17.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:17.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:17.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:17.109][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:35:17.127][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:35:17.129][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-27 22:35:17.131][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:17.139][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-11-27 22:35:17.184][biodb::testThat]
biodb.INFO [2024-11-27 22:35:17.186][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-11-27 22:35:17.187][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:17.188][biodb::testThat]
biodb.TRACE[2024-11-27 22:35:17.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:17.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:17.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:17.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:17.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.252][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.257][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.262][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-27 22:35:17.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-27 22:35:17.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.267][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-27 22:35:17.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-27 22:35:17.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:17.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:17.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:17.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:17.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:17.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:17.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.322][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.327][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-27 22:35:17.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.331][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-27 22:35:17.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-27 22:35:17.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-27 22:35:17.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-27 22:35:17.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:17.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:35:17.371][biodb::testThat]
biodb.INFO [2024-11-27 22:35:17.372][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-27 22:35:17.374][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:17.375][biodb::testThat]
biodb.INFO [2024-11-27 22:35:17.387][biodb::testThat]
biodb.INFO [2024-11-27 22:35:17.388][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-27 22:35:17.389][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:17.390][biodb::testThat]
biodb.INFO [2024-11-27 22:35:17.425][biodb::testThat]
biodb.INFO [2024-11-27 22:35:17.426][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-27 22:35:17.427][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:17.429][biodb::testThat]
biodb.DEBUG[2024-11-27 22:35:17.433][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-11-27 22:35:18.242][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-11-27 22:35:19.694][biodb::testThat]
biodb.INFO [2024-11-27 22:35:19.696][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-27 22:35:19.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:19.698][biodb::testThat]
biodb.DEBUG[2024-11-27 22:35:20.204][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-11-27 22:35:20.719][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:20.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:20.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:20.723][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:20.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:20.726][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:20.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:20.728][ef$get] fields variable is a list.
biodb.INFO [2024-11-27 22:35:20.730][biodb::testThat]
biodb.INFO [2024-11-27 22:35:20.732][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2024-11-27 22:35:20.733][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:35:20.734][biodb::testThat]
biodb.TRACE[2024-11-27 22:35:20.770][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:20.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:20.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:20.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:20.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:20.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:20.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:20.780][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:20.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:20.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:20.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:20.942][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:35:20.946][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:35:20.948][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-27 22:35:20.950][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:20.952][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-27 22:35:21.022][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:35:21.026][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:35:21.028][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-27 22:35:21.030][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:21.032][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-11-27 22:35:21.082][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:35:21.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:35:21.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:21.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:21.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:21.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:21.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:21.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:21.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:21.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:21.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:21.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:21.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:21.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:21.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:21.142][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:35:21.147][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:35:21.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-27 22:35:21.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:21.221][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-27 22:35:21.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:21.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:21.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:21.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:21.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:21.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:21.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:21.238][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-11-27 22:35:21.293][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:21.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-11-27 22:35:21.297][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:21.299][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:21.300][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:21.301][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:21.303][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:21.304][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:21.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:21.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:21.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:21.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:21.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:21.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:21.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:21.467][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-11-27 22:35:21.483][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:21.485][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:21.504][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-11-27 22:35:21.906][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-11-27 22:35:22.320][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:22.324][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-11-27 22:35:22.331][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-11-27 22:35:22.339][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-11-27 22:35:22.346][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:22.348][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:22.351][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:22.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:22.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:22.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:22.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:22.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:22.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:22.374][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.TRACE[2024-11-27 22:35:22.378][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.381][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.384][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.395][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:22.397][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:22.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.400][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.403][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:22.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:22.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.411][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:22.413][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:22.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.417][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:22.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:22.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:22.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:22.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.433][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:22.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:22.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:22.446][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:22.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.459][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:22.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.470][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:22.472][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:22.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.476][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.478][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:22.480][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.484][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.486][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:22.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.494][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:22.496][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:22.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.500][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:22.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:22.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.511][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:22.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:22.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:22.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:22.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.527][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:22.529][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:22.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.533][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.535][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:22.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:22.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.543][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:22.545][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:22.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.549][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.551][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:22.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:22.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:22.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:22.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:22.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:22.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:22.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:22.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:22.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:22.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:22.638][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-11-27 22:35:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:22.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:22.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:22.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:22.680][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:35:22.696][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:35:22.699][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-27 22:35:22.701][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:23.129][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-27 22:35:24.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:24.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:24.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:24.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:24.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:24.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:24.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:24.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:24.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:24.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:24.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:24.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:24.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:24.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:24.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:24.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:24.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:24.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:24.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:24.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:24.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:24.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:24.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:24.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:24.585][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-11-27 22:35:24.588][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:24.590][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-11-27 22:35:24.593][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:24.595][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:24.598][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:24.600][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:24.602][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:24.604][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:24.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:24.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:24.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:24.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:24.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:24.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:24.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:24.646][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-11-27 22:35:24.651][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:24.652][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:24.654][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-11-27 22:35:25.078][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-11-27 22:35:25.498][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:25.503][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-11-27 22:35:25.510][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-11-27 22:35:25.516][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-11-27 22:35:25.519][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:25.522][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:25.524][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:25.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:25.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:25.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:25.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:25.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:25.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:25.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:25.682][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.684][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.688][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.699][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:25.701][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:25.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.705][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.707][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:25.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:25.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.717][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:25.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:25.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.723][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:25.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:25.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:25.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:25.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.751][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:25.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:25.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.761][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:25.763][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:25.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.766][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:25.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:25.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.776][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:25.778][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:25.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.782][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.784][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:25.786][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.790][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.792][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:25.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:25.802][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:25.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.806][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:25.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:25.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.816][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:25.818][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:25.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.822][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:25.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:25.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.832][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:25.835][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:25.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.838][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.841][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:25.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:25.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.848][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:25.850][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:25.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.853][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:25.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:25.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:25.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:25.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:25.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:25.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:25.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:25.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:25.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:25.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:25.940][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-11-27 22:35:25.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:25.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:25.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:25.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:26.172][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:35:26.178][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:35:26.181][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-27 22:35:26.184][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:35:26.188][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-27 22:35:26.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:26.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:26.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:26.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:26.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:26.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:26.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:26.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:26.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:26.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:26.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:26.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:26.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:26.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:26.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:26.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:26.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:26.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:26.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:26.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:26.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:26.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:26.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:26.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:26.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:26.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:26.267][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-11-27 22:35:26.269][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:26.273][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-11-27 22:35:26.276][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:26.389][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:26.441][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:26.444][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:26.448][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:26.451][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:26.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:26.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:26.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:26.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:26.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:26.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:26.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:26.562][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-11-27 22:35:26.567][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:26.569][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:26.572][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-11-27 22:35:27.434][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-11-27 22:35:27.854][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:27.858][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-11-27 22:35:27.865][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-11-27 22:35:27.871][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-11-27 22:35:27.874][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:27.876][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:27.879][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:27.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:27.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:27.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:27.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:27.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:28.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:28.019][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.TRACE[2024-11-27 22:35:28.024][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.027][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.031][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.043][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:28.045][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:28.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.049][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.051][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:28.053][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:28.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.057][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.060][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:28.062][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:28.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:28.071][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:28.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.075][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.077][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:28.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:28.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.083][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.086][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:28.088][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.092][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.094][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:28.096][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:28.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.100][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.113][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:28.116][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:28.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.120][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:28.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:28.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.131][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:28.134][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:28.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.138][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.140][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:28.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:28.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.149][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:28.151][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:28.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.155][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:28.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:28.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:28.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:28.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:28.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:28.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:28.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:28.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:28.238][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-11-27 22:35:28.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:28.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:28.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:28.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:28.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:28.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:28.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:28.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:28.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:28.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:28.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:28.433][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-11-27 22:35:28.435][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:28.439][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-11-27 22:35:28.442][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:28.444][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:28.447][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:28.557][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:28.559][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:28.562][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:28.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:28.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:28.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:28.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:28.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:28.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:28.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:28.668][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-11-27 22:35:28.675][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:28.677][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:28.681][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-11-27 22:35:29.125][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-11-27 22:35:29.541][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:29.545][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-11-27 22:35:29.552][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-11-27 22:35:29.558][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-11-27 22:35:29.562][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:29.575][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:29.578][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:29.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:29.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:29.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:29.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:29.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:29.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:29.603][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.TRACE[2024-11-27 22:35:29.665][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.668][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.683][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:29.685][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:29.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.689][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.691][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:29.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:29.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.700][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:29.703][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:29.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.707][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:29.711][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:29.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.715][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.717][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:29.720][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:29.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.724][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.726][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:29.729][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.733][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.735][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:29.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:29.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.742][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.744][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:29.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:29.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.750][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.753][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:29.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:29.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.764][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:29.766][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:29.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.770][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.773][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:29.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:29.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.781][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:29.783][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:29.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:29.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:29.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:29.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:29.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:29.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:29.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:29.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:29.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:29.879][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-11-27 22:35:29.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:29.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:29.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:29.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:29.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:29.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:29.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:30.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:30.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:30.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:30.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:30.096][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-11-27 22:35:30.099][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:30.102][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-11-27 22:35:30.105][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:30.108][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:30.110][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:30.113][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:30.115][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:30.117][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:30.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:30.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:30.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:30.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:30.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:30.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:30.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:30.148][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-11-27 22:35:30.153][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:30.155][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:30.158][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-11-27 22:35:30.577][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-11-27 22:35:30.997][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:31.002][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-11-27 22:35:31.009][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-11-27 22:35:31.015][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-11-27 22:35:31.018][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:31.021][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:31.023][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:31.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:31.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:31.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:31.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:31.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:31.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:31.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:31.150][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.153][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.256][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.282][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:31.288][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:31.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.300][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:31.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:31.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.428][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.455][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:31.458][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:31.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.477][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.480][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:31.483][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:31.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.488][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.491][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:31.493][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:31.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.501][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:31.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.507][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.509][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:31.512][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:31.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.516][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.519][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:31.521][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:31.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.525][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:31.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.537][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:31.539][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:31.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.543][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.545][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:31.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:31.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.554][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:31.556][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:31.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.560][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:31.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:31.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:31.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:31.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:31.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:31.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:31.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:31.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:31.657][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-11-27 22:35:31.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:31.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:31.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:31.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:31.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:31.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:31.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:31.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:31.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:31.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:31.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:31.722][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-11-27 22:35:31.724][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:31.727][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-11-27 22:35:31.729][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:31.732][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:31.734][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:31.736][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:31.739][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:31.740][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:31.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:31.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:31.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:31.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:31.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:31.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:31.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:31.773][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-11-27 22:35:31.778][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:31.780][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:31.783][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-11-27 22:35:32.517][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-11-27 22:35:32.945][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:32.950][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-11-27 22:35:32.957][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-11-27 22:35:32.963][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-11-27 22:35:32.966][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:32.969][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:32.972][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:32.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:32.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:32.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:33.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:33.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:33.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:33.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:33.265][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.457][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.492][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:33.495][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:33.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.505][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.524][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:33.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:33.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.558][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:33.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:33.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.701][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:33.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:33.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.713][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:33.715][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:33.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.720][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:33.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:33.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.738][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:33.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:33.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.745][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:33.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:33.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.757][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:33.759][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:33.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.762][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.765][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:33.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:33.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.772][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:33.774][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.778][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.780][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:33.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:33.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:33.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.794][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:33.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:33.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.804][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:33.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:33.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.813][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:33.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:33.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.821][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:33.823][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:33.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.829][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:33.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:33.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.837][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:33.839][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:33.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.843][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.846][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:33.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:33.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:33.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:33.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:33.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:33.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:33.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:33.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:33.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:33.935][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-11-27 22:35:33.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:33.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:33.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:33.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:33.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:33.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:34.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:34.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:34.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:34.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:34.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:34.025][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-11-27 22:35:34.027][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:34.120][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-11-27 22:35:34.123][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:34.125][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:34.128][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:34.132][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:34.137][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:34.139][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:34.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:34.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:34.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:34.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:34.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:34.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:34.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:34.290][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-11-27 22:35:34.394][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:34.396][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:34.399][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-11-27 22:35:34.814][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-11-27 22:35:35.232][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:35.237][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-11-27 22:35:35.244][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-11-27 22:35:35.250][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-11-27 22:35:35.254][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:35.256][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:35.259][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:35.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:35.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:35.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:35.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:35.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:35.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:35.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:35.462][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:35.472][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:35.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.478][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:35.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:35.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.502][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:35.510][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:35.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.772][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.775][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:35.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.799][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:35.801][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:35.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.806][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:35.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:35.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:35.819][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:35.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.823][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:35.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:35.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.833][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:35.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:35.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.839][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:35.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:35.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.850][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:35.852][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:35.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.855][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.858][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:35.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:35.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.866][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:35.868][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:35.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.872][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.874][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:35.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:35.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.882][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:35.884][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:35.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:35.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:35.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.899][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:35.901][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:35.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.905][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.907][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:35.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:35.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.928][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:35.930][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:35.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.934][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.937][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:35.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:35.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.945][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:35.947][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:35.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.951][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.953][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:35.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:35.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:35.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:35.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:35.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:35.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:35.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:35.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:35.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:35.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:35.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:36.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:36.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:36.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:36.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:36.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:36.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:36.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:36.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:36.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:36.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:36.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:36.043][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-11-27 22:35:36.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:36.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:36.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:36.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:36.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:36.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:36.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:36.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:36.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:36.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:36.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:36.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:36.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:36.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:36.350][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-11-27 22:35:36.361][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:36.364][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-11-27 22:35:36.367][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:36.370][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:36.372][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:36.374][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:36.376][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:36.378][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:36.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:36.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:36.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:36.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:36.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:36.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:36.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:36.514][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-11-27 22:35:36.520][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:36.522][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:36.525][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-11-27 22:35:36.943][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-11-27 22:35:37.423][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:37.427][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-11-27 22:35:37.434][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-11-27 22:35:37.440][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-11-27 22:35:37.444][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:37.447][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:37.449][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:37.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:37.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:37.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:37.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:37.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:37.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:37.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:37.726][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:37.729][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:37.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.801][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:37.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:37.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.816][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:37.818][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:37.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.823][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.825][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:37.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.919][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:37.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:37.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.928][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.931][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:37.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:37.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.940][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:37.942][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:37.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.955][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:37.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:37.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.974][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:37.976][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:37.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.981][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:37.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:37.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:37.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:37.992][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:37.994][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:37.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.000][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.002][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:38.004][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.009][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.012][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:38.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.022][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:38.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:38.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.028][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:38.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:38.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.039][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:38.041][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:38.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.045][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:38.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:38.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.057][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:38.059][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:38.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.066][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.068][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:38.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:38.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.077][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:38.079][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:38.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.083][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.085][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:38.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:38.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:38.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:38.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:38.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:38.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:38.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:38.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:38.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:38.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:38.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:38.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:38.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:38.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:38.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:38.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:38.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:38.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:38.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:38.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:38.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:38.173][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-11-27 22:35:38.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:38.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:38.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:38.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:38.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:38.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:38.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:38.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:38.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:38.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:38.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:38.241][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-11-27 22:35:38.243][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:38.247][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-11-27 22:35:38.255][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:38.468][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:38.484][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:38.487][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:38.489][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:38.491][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:38.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:38.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:38.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:38.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:38.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:38.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:38.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:38.611][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-11-27 22:35:38.616][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:38.619][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:38.622][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-11-27 22:35:39.121][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-11-27 22:35:39.544][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:39.548][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-11-27 22:35:39.556][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-11-27 22:35:39.562][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-11-27 22:35:39.566][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:39.568][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:39.571][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:39.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:39.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:39.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:39.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:39.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:39.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:39.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:39.731][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:39.733][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:39.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.738][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:39.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.751][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:39.753][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:39.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.758][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:39.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.769][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:39.772][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:39.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.776][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:39.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:39.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.790][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:39.793][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:39.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.797][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:39.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:39.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.808][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:39.810][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:39.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.814][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:39.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:39.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.826][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:39.828][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:39.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.832][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.835][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:39.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:39.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.841][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.844][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:39.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:39.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:39.855][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:39.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.862][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:39.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:39.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.874][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:39.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:39.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.892][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:39.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:39.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.904][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:39.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:39.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.910][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:39.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:39.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.921][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:39.923][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:39.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.927][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.930][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:39.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:39.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:39.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:39.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:39.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:39.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:39.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:39.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:39.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:39.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:39.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:39.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:39.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:39.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:39.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:39.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:39.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:39.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:40.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:40.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:40.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:40.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:40.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:40.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:40.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:40.017][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-11-27 22:35:40.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:40.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:40.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:40.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:40.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:40.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:40.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:40.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:40.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:40.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:40.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:40.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:40.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:40.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:40.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:40.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:40.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:40.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:40.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:40.218][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-11-27 22:35:40.221][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:40.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-11-27 22:35:40.227][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:40.229][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:40.231][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:40.233][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:40.235][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:40.237][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:40.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:40.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:40.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:40.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:40.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:40.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:40.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:40.331][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-11-27 22:35:40.337][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:40.339][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:40.342][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-11-27 22:35:40.772][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-11-27 22:35:41.188][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:41.192][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-11-27 22:35:41.199][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-11-27 22:35:41.204][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-11-27 22:35:41.206][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:41.208][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:41.210][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:41.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:41.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:41.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:41.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:41.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:41.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:41.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:41.241][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.243][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.245][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.251][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:41.253][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:41.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.255][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.257][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:41.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:41.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.262][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:41.264][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:41.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.266][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:41.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:41.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.276][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:41.278][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:41.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.281][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:41.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:41.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.292][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:41.294][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:41.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:41.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:41.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.308][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:41.310][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:41.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.314][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.316][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:41.318][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.322][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.324][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:41.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.331][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:41.333][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:41.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.336][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:41.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:41.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.343][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:41.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:41.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.347][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:41.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:41.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.354][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:41.355][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:41.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.357][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.359][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:41.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:41.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.365][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:41.366][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:41.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.368][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:41.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:41.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:41.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:41.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:41.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:41.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:41.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:41.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:41.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:41.462][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-11-27 22:35:41.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:41.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:41.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:41.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:41.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:41.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:41.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:41.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:41.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:41.567][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-11-27 22:35:41.569][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:41.572][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-11-27 22:35:41.575][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:41.577][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:41.580][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:41.582][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:41.584][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:41.586][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:41.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:41.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:41.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:41.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:41.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:41.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:41.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:41.633][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-11-27 22:35:41.641][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:41.650][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:41.656][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-11-27 22:35:42.117][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-11-27 22:35:42.538][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:42.542][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-11-27 22:35:42.549][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-11-27 22:35:42.554][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-11-27 22:35:42.558][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:42.560][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:42.563][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:42.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:42.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:42.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:42.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:42.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:42.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:42.587][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.TRACE[2024-11-27 22:35:42.591][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.593][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.608][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:42.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:42.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.614][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:42.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:42.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.624][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:42.626][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:42.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.630][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.632][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:42.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:42.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.641][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:42.643][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:42.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.647][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:42.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:42.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.655][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:42.657][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:42.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:42.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.669][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:42.671][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:42.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.675][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.677][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:42.680][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.684][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.686][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:42.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.694][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:42.697][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:42.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.701][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:42.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:42.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.725][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:42.727][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:42.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.731][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:42.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:42.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.742][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:42.744][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:42.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.748][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.750][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:42.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:42.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.758][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:42.760][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:42.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.764][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.766][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:42.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:42.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:42.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:42.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:42.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:42.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:42.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:42.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:42.863][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-11-27 22:35:42.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:42.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:42.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:42.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:42.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:42.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:42.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:42.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:42.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:42.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:42.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:42.921][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-11-27 22:35:42.923][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:42.927][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-11-27 22:35:42.929][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:42.932][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:42.934][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:42.936][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:42.938][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:42.940][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:42.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:42.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:42.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:42.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:42.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:42.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:42.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:42.971][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-11-27 22:35:42.977][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:42.979][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:42.984][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-11-27 22:35:43.768][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-11-27 22:35:44.191][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:44.197][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-11-27 22:35:44.204][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-11-27 22:35:44.210][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-11-27 22:35:44.214][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:44.217][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:44.230][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:44.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:44.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:44.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:44.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:44.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:44.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:44.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:44.267][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.475][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.480][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.491][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:44.494][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:44.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.500][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:44.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:44.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.509][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:44.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:44.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.516][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.518][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:44.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:44.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.527][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:44.530][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:44.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.534][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:44.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:44.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.550][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:44.552][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:44.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.556][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:44.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:44.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.567][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:44.569][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:44.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.573][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.576][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:44.578][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.582][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.584][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:44.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.593][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:44.595][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:44.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:44.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:44.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.611][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:44.613][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:44.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.618][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.621][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:44.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:44.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.629][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:44.632][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:44.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.639][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.642][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:44.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:44.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.650][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:44.653][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:44.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.657][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.659][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:44.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:44.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:44.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:44.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:44.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:44.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:44.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:44.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:44.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:44.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:44.761][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-11-27 22:35:44.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:44.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:44.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:44.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:44.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:44.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:44.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:44.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:44.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:44.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:44.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:44.968][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-11-27 22:35:44.970][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:44.973][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-11-27 22:35:45.175][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:45.178][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:45.190][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:45.193][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:45.196][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:45.198][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:45.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:45.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:45.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:45.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:45.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:45.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:45.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:45.235][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-11-27 22:35:45.241][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:45.243][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:45.246][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-11-27 22:35:45.872][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-11-27 22:35:46.295][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:46.300][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-11-27 22:35:46.307][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-11-27 22:35:46.313][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-11-27 22:35:46.317][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:46.319][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:46.322][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:46.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:46.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:46.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:46.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:46.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:46.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:46.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:46.463][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.466][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.473][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.489][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:46.491][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:46.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.499][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.586][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:46.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.600][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:46.602][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:46.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.606][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:46.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:46.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.617][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:46.778][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:46.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.785][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:46.791][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:46.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.799][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:46.805][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:46.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.809][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.812][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:46.816][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:46.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.821][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.824][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:46.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:46.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.833][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:46.835][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:46.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.839][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:46.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.864][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:46.867][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:46.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.870][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:46.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:46.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.881][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:46.883][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:46.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:46.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:46.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.897][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:46.899][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:46.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.903][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:46.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:46.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:46.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:46.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:46.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:46.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:46.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:46.986][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-11-27 22:35:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:46.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:46.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:46.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:46.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:47.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:47.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:47.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:47.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:47.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:47.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:47.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:47.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:47.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:47.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:47.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:47.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:47.046][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-11-27 22:35:47.048][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:47.052][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-11-27 22:35:47.054][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:47.057][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:47.059][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:47.061][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:47.063][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:47.065][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:47.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:47.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:47.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:47.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:47.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:47.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:47.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:47.093][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-11-27 22:35:47.098][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:47.100][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:47.103][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-11-27 22:35:47.523][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-11-27 22:35:47.941][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:47.946][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-11-27 22:35:47.953][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-11-27 22:35:47.959][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-11-27 22:35:47.963][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:47.965][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:47.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:47.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:47.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:47.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:48.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:48.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:48.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:48.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:48.188][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.190][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.194][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.204][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:48.206][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:48.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.210][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.213][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:48.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:48.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.221][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:48.223][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:48.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.227][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:48.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.237][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:48.239][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:48.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.243][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.246][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:48.248][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:48.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.252][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.254][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:48.256][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:48.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.260][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.263][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:48.265][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:48.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:48.282][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:48.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.286][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:48.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:48.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.296][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:48.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:48.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.302][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:48.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:48.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.313][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:48.315][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:48.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.319][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.321][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:48.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:48.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.329][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:48.331][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:48.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.335][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:48.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:48.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:48.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:48.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:48.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:48.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:48.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:48.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:48.418][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-11-27 22:35:48.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:48.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:48.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:48.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:48.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:48.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:48.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:48.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:48.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:48.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:48.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:48.476][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-11-27 22:35:48.478][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:48.481][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-11-27 22:35:48.484][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:48.486][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:48.488][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:48.490][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:48.492][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:48.494][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:48.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:48.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:48.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:48.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:48.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:48.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:48.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:48.523][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-11-27 22:35:48.528][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:48.530][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:48.533][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-11-27 22:35:49.392][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-11-27 22:35:49.831][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:49.835][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-11-27 22:35:49.843][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-11-27 22:35:49.849][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-11-27 22:35:49.853][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:49.856][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:49.858][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:49.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:49.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:49.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:50.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:50.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:50.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:50.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:50.843][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.844][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.846][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.853][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:50.854][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:50.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.856][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.858][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:50.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:50.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.863][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:50.865][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:50.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.867][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:50.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:50.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.873][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:50.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:50.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.877][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:50.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:50.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.883][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:50.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:50.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:50.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:50.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.893][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:50.894][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:50.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.896][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.898][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:50.899][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:50.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.901][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.903][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:50.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:50.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.908][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:50.909][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:50.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.912][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:50.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:50.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.918][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:50.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:50.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.928][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:50.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:50.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.935][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:50.937][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:50.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.939][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.940][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:50.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:50.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.945][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:50.947][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:50.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.949][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:50.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:50.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:50.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:50.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:50.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:50.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:50.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:50.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:50.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:50.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:50.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:50.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:51.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:51.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:51.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:51.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:51.005][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-11-27 22:35:51.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:51.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:51.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:51.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:51.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:51.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:51.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:51.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:51.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:51.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:51.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:51.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:51.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:51.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:51.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:51.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:51.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:51.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:51.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:51.035][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-11-27 22:35:51.036][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:51.038][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-11-27 22:35:51.040][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:51.041][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:51.043][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:51.044][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:51.045][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:51.046][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:51.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:51.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:51.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:51.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:51.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:51.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:51.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:51.063][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-11-27 22:35:51.066][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:51.068][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:51.069][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-11-27 22:35:56.776][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-11-27 22:35:57.180][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:57.182][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-11-27 22:35:57.187][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-11-27 22:35:57.190][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-11-27 22:35:57.192][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:57.194][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:57.195][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:57.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:57.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:57.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:58.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:58.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:58.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:58.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:58.376][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.377][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.379][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.386][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:58.387][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:58.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.389][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.391][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:58.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:58.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.396][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:58.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:58.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.399][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:58.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:58.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.406][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:58.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:58.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.409][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:58.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:58.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.416][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:58.418][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:58.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.422][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:58.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:58.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:58.434][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:58.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.438][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.441][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:58.443][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.446][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:58.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.456][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:58.459][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:58.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.462][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:58.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:58.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.472][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:58.474][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:58.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.478][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.481][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:58.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:58.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.488][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:58.490][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:58.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.496][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:58.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:58.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.503][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:58.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:58.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.509][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.511][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:58.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:58.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:58.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:58.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:58.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:58.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:58.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:58.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:58.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:58.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:58.590][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-11-27 22:35:58.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:58.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:58.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:58.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:58.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:58.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:58.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:58.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:58.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:58.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:58.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:58.619][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-11-27 22:35:58.620][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:58.622][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-11-27 22:35:58.624][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:58.625][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:58.626][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:58.628][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:58.629][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:58.630][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:58.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:58.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:58.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:58.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:58.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:58.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:58.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:58.646][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-11-27 22:35:58.649][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:35:58.651][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:35:58.652][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-11-27 22:35:59.061][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-11-27 22:35:59.467][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:35:59.470][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-11-27 22:35:59.474][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-11-27 22:35:59.478][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-11-27 22:35:59.480][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:35:59.481][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:35:59.483][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:35:59.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:59.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:59.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:59.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:59.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:59.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:59.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:35:59.794][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.795][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.798][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.804][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:59.805][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:59.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.807][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.809][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:35:59.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:35:59.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.814][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:59.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:59.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:35:59.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:35:59.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:59.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:59.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:35:59.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:35:59.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.833][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:59.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:59.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.837][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:35:59.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:35:59.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.843][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:59.844][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:35:59.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.847][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.848][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:59.849][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.852][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.853][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:35:59.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.865][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:59.866][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:59.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.868][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:59.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:35:59.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.875][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:59.876][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:59.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.878][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:35:59.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:35:59.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.884][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:59.886][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:59.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.888][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.889][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:35:59.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:35:59.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.894][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:59.895][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:59.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.898][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:35:59.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:35:59.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:59.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:59.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:59.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:59.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:35:59.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:35:59.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:35:59.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:35:59.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:59.952][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-11-27 22:35:59.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:35:59.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:35:59.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:35:59.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:35:59.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:59.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:59.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:35:59.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:35:59.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:35:59.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:35:59.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:35:59.980][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-11-27 22:35:59.982][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:35:59.983][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-11-27 22:35:59.985][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:35:59.986][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:35:59.988][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:35:59.989][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:35:59.990][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:35:59.991][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:35:59.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:35:59.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:35:59.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:00.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:00.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:00.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:00.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:00.007][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-11-27 22:36:00.011][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:00.012][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:00.013][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-11-27 22:36:00.417][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-11-27 22:36:00.831][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:00.834][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-11-27 22:36:00.844][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-11-27 22:36:00.848][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-11-27 22:36:00.850][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:36:00.851][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:36:00.853][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:00.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:00.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:00.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:03.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:03.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:03.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:03.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:03.560][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.561][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.563][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.570][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:03.571][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:03.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.573][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.575][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:03.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:03.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.580][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:03.581][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:03.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.585][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:03.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:03.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:03.591][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:03.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.593][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:03.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:03.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.600][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:03.601][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:03.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.603][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:03.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:03.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.610][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:03.611][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:03.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.613][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.615][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:03.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.618][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.620][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:03.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:03.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:03.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.628][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:03.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:03.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.635][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:03.636][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:03.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.638][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:03.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:03.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.645][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:03.646][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:03.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.648][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.650][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:03.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:03.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.655][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:03.656][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:03.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.658][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.660][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:03.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:03.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:03.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:03.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:03.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:03.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:03.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:03.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:03.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:03.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:03.719][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-11-27 22:36:03.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:03.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:03.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:03.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:03.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:03.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:03.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:03.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:03.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:03.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:03.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:03.748][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-11-27 22:36:03.750][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:36:03.751][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-11-27 22:36:03.753][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:36:03.754][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:36:03.756][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:36:03.757][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:36:03.758][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:36:03.759][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:36:03.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:03.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:03.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:03.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:03.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:03.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:03.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:03.776][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-11-27 22:36:03.779][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:03.780][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:03.782][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-11-27 22:36:04.183][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-11-27 22:36:04.597][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:04.601][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-11-27 22:36:04.607][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-11-27 22:36:04.611][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-11-27 22:36:04.614][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:36:04.616][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:36:04.617][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:04.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:04.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:04.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:06.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:06.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:06.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:06.994][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[2024-11-27 22:36:06.996][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:06.998][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:06.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.000][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.007][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:07.008][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:07.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.012][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.014][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:07.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:07.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.022][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:07.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:07.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.028][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.030][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:07.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:07.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.037][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:07.039][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:07.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.043][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:07.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:07.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.053][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:07.055][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:07.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.058][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:07.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:07.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.081][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:07.083][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:07.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.087][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.090][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:07.092][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.096][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.098][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:07.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.106][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:07.108][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:07.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.112][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:07.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:07.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.122][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:07.124][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:07.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.128][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:07.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:07.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.138][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:07.140][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:07.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.144][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.146][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:07.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:07.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.154][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:07.156][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:07.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.160][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.162][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:07.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:07.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:07.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:07.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:07.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:07.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:07.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:07.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:07.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:07.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:07.221][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-11-27 22:36:07.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:07.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:07.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:07.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:07.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:07.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:07.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:07.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:07.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:07.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:07.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:07.251][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-11-27 22:36:07.253][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:36:07.254][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-11-27 22:36:07.256][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:36:07.258][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:36:07.259][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:36:07.260][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:36:07.261][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:36:07.263][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:36:07.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:07.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:07.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:07.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:07.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:07.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:07.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:07.286][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-11-27 22:36:07.289][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:07.290][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:07.292][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-11-27 22:36:10.625][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-11-27 22:36:11.167][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:11.170][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-11-27 22:36:11.174][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-11-27 22:36:11.178][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-11-27 22:36:11.181][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:36:11.182][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:36:11.184][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:11.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:11.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:11.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:14.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:14.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:14.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:14.782][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[2024-11-27 22:36:14.785][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.786][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.788][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.796][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:14.797][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:14.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.799][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.801][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:14.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:14.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.806][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:14.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:14.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:14.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:14.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:14.818][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:14.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.820][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:14.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:14.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:14.828][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:14.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.830][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:14.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:14.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.837][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:14.838][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:14.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.841][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.843][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:14.845][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.849][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.851][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:14.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.857][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:14.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:14.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.861][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:14.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:14.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.867][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:14.869][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:14.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.871][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:14.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:14.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.878][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:14.879][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:14.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.882][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.883][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:14.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:14.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.889][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:14.890][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:14.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.892][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.894][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:14.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:14.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:14.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:14.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:14.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:14.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:14.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:14.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:14.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:14.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:14.959][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-11-27 22:36:14.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:14.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:14.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:14.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:14.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:14.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:14.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:15.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:15.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:15.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:15.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:15.588][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-11-27 22:36:15.589][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:36:15.591][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-11-27 22:36:15.593][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:36:15.596][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:36:15.598][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:36:15.600][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:36:15.602][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:36:15.603][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:36:15.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:15.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:15.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:15.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:15.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:15.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:15.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:15.623][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-11-27 22:36:15.628][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:15.630][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:15.632][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-11-27 22:36:16.046][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-11-27 22:36:16.451][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:16.454][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-11-27 22:36:16.459][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-11-27 22:36:16.463][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-11-27 22:36:16.467][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:36:16.469][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:36:16.472][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:16.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:16.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:16.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:17.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:17.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:17.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:17.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:17.462][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.464][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.469][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.479][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:17.481][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:17.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.485][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.487][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:17.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:17.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.495][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:17.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:17.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.501][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.503][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:17.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:17.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.510][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:17.523][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:17.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.527][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:17.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:17.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.538][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:17.540][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:17.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.544][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:17.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:17.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.551][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:17.552][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:17.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.554][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.556][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:17.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.561][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:17.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.566][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:17.567][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:17.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.570][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:17.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:17.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.576][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:17.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:17.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.580][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:17.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:17.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.587][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:17.588][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:17.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.590][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.592][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:17.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:17.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.597][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:17.598][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:17.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.602][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:17.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:17.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:17.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:17.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:17.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:17.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:17.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:17.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:17.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:17.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:17.661][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-11-27 22:36:17.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:17.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:17.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:17.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:19.183][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:19.192][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:19.194][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-27 22:36:19.196][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:19.199][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-27 22:36:19.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:19.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:19.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:19.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:19.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:19.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:19.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:19.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:19.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:19.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:19.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:19.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:19.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:19.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:19.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:19.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:19.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:19.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:19.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:19.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:19.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:19.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:19.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:19.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:19.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:19.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:19.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:19.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:19.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:19.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:22.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:22.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:22.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:22.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:22.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:22.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:22.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:22.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:22.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:22.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:22.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:22.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:22.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:22.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:22.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:22.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:22.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:22.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:22.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:22.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:22.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:22.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:22.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:22.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:22.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:22.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:22.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:22.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:22.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:22.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:22.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:22.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:22.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:22.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:22.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:23.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:23.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:23.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:23.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:23.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:23.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:23.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:23.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:23.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:23.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:23.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:23.969][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:23.974][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:23.975][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:23.977][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:24.386][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:36:24.793][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:24.796][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-11-27 22:36:24.803][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-11-27 22:36:24.808][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:24.811][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:24.813][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:24.815][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:25.233][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:36:25.638][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:25.641][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-11-27 22:36:25.646][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-11-27 22:36:25.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:25.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:25.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:26.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:26.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:26.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:26.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:26.204][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-11-27 22:36:26.205][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:36:26.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-11-27 22:36:26.208][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:36:26.210][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:36:26.211][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:36:26.212][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:36:26.214][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:36:26.215][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:36:26.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:26.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:26.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:26.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:26.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:26.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:26.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:26.322][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-11-27 22:36:26.326][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:26.327][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:26.328][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-11-27 22:36:26.732][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-11-27 22:36:27.143][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:27.147][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-11-27 22:36:27.155][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-11-27 22:36:27.161][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-11-27 22:36:27.164][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:36:27.167][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:36:27.170][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:27.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:27.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:27.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:27.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:27.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:27.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:27.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:27.586][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.590][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.597][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:27.598][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:27.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.600][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.602][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:27.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:27.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.607][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:27.608][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:27.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.619][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:27.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:27.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.627][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:27.628][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:27.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.630][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:27.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:27.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.636][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:27.638][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:27.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.640][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:27.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:27.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.646][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:27.648][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:27.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:27.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:27.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.657][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:27.658][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:27.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.660][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.662][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:27.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:27.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.667][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.668][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.677][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:27.678][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:27.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:27.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:27.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.687][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:27.689][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:27.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.691][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.693][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:27.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:27.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.698][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:27.699][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:27.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.701][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.703][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:27.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:27.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:27.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:27.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:27.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:27.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:27.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:27.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:27.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:27.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:27.757][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-11-27 22:36:27.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:27.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:27.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:27.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:27.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:27.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:27.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:33.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:33.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:33.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:33.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:33.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:33.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:33.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:33.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:33.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:33.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:33.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:33.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:33.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:33.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:33.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:33.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:33.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:33.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:33.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:33.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:33.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:33.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:33.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:33.444][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-11-27 22:36:33.445][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:36:33.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-11-27 22:36:33.449][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:36:33.450][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:36:33.451][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:36:33.453][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:36:33.454][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:36:33.455][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:36:33.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:33.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:33.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:33.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:33.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:33.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:33.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:33.471][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-11-27 22:36:33.474][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:33.475][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:33.476][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-11-27 22:36:33.878][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-11-27 22:36:34.287][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:34.290][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-11-27 22:36:34.295][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-11-27 22:36:34.299][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-11-27 22:36:34.301][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:36:34.302][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:36:34.304][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:34.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:34.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:34.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:34.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:34.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:34.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:34.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:34.412][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.415][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.422][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:34.423][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:34.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.425][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.427][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:34.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:34.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.431][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:34.433][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:34.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.435][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.436][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:34.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:34.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.441][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:34.442][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:34.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.445][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:34.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.451][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:34.453][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:34.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.456][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:34.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:34.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.463][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:34.464][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:34.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.467][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.468][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:34.469][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:34.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.472][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.473][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:34.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:34.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.485][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.487][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.489][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.498][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:34.500][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:34.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:34.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:34.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.514][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:34.516][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:34.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.519][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.521][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:34.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:34.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.529][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:34.530][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:34.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.533][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.534][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:34.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:34.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:34.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:34.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:34.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:34.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:34.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:34.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:34.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:34.587][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-11-27 22:36:34.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:34.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:34.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:34.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.220][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:37.223][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:37.225][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-27 22:36:37.227][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:37.229][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-27 22:36:37.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.862][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:37.865][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:37.867][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-11-27 22:36:37.869][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:37.871][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-11-27 22:36:37.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:37.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:37.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:37.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:37.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:37.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:37.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:37.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:37.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:37.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:37.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:37.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.498][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:38.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:38.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:36:38.514][biodb::testThat]
biodb.INFO [2024-11-27 22:36:38.515][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-11-27 22:36:38.516][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:38.517][biodb::testThat]
biodb.TRACE[2024-11-27 22:36:38.521][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:36:38.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:36:38.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:38.565][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:38.568][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:38.570][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-27 22:36:38.572][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:38.574][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-27 22:36:38.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.605][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:38.608][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:38.616][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-27 22:36:38.617][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:38.621][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-27 22:36:38.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:38.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.679][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-27 22:36:38.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.703][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.704][private$selectFields]
biodb.TRACE[2024-11-27 22:36:38.706][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:38.707][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:38.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.711][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.713][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.715][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.718][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.719][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.720][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.724][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.726][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:38.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.749][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-27 22:36:38.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.780][private$selectFields]
biodb.TRACE[2024-11-27 22:36:38.781][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:38.783][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:38.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.786][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.788][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.793][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.795][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.798][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.800][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.801][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:38.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.817][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-27 22:36:38.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.841][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.842][private$selectFields]
biodb.TRACE[2024-11-27 22:36:38.843][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:38.844][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:38.845][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.850][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.854][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.857][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:38.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.861][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.863][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:38.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.878][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-27 22:36:38.879][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-27 22:36:38.880][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-27 22:36:38.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:38.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:38.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:38.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:38.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:38.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:38.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:38.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:38.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:38.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:38.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:38.977][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:38.981][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:38.982][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-27 22:36:38.984][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:38.996][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-27 22:36:38.999][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:39.003][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:39.004][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-27 22:36:39.006][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:39.018][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-27 22:36:39.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.269][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-27 22:36:39.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.312][private$selectFields]
biodb.TRACE[2024-11-27 22:36:39.313][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:39.314][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:39.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.320][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.322][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.324][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.327][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.331][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.332][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:39.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.348][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-27 22:36:39.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.407][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.408][private$selectFields]
biodb.TRACE[2024-11-27 22:36:39.410][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:39.411][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:39.412][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.414][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.415][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.418][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.419][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.436][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.437][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.439][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.441][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.443][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:39.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.460][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-27 22:36:39.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.487][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.489][private$selectFields]
biodb.TRACE[2024-11-27 22:36:39.490][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:39.491][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:39.492][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.498][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.503][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.504][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.506][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.507][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.508][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.511][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.512][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.530][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-27 22:36:39.531][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-27 22:36:39.533][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-27 22:36:39.544][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:39.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:39.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:36:39.555][biodb::testThat]
biodb.INFO [2024-11-27 22:36:39.556][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-11-27 22:36:39.558][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:39.559][biodb::testThat]
biodb.TRACE[2024-11-27 22:36:39.563][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:36:39.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:36:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:39.611][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:39.614][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:39.616][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-27 22:36:39.617][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:39.620][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-27 22:36:39.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:39.653][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:39.654][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-27 22:36:39.656][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:39.659][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-27 22:36:39.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:39.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.714][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-27 22:36:39.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.739][private$selectFields]
biodb.TRACE[2024-11-27 22:36:39.740][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:39.741][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:39.743][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.747][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.748][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.750][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.752][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.753][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.754][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.759][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.760][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:39.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.775][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-27 22:36:39.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.788][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.TRACE[2024-11-27 22:36:39.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.800][private$selectFields]
biodb.TRACE[2024-11-27 22:36:39.801][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:39.802][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:39.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.811][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.813][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.814][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.815][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.817][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.820][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.821][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:39.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-27 22:36:39.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.861][private$selectFields]
biodb.TRACE[2024-11-27 22:36:39.862][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:39.863][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:39.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.869][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.873][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.875][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.876][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:39.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.880][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.881][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:39.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:39.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.897][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-27 22:36:39.898][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-27 22:36:39.899][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-27 22:36:39.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:39.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:39.945][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:39.949][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:39.950][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-27 22:36:39.952][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:39.954][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-27 22:36:39.957][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:39.961][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:39.962][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-27 22:36:39.964][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:39.966][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-27 22:36:39.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:39.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:39.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:39.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:39.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:39.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:39.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:39.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:39.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:39.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:39.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:40.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:40.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:40.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:40.054][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-27 22:36:40.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.081][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.082][private$selectFields]
biodb.TRACE[2024-11-27 22:36:40.083][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:40.084][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:40.085][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.090][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.094][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.095][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.096][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.102][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:40.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.117][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-27 22:36:40.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.142][private$selectFields]
biodb.TRACE[2024-11-27 22:36:40.143][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:40.144][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:40.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.150][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.152][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.154][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.156][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.158][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.161][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.162][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:40.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.178][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-27 22:36:40.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.202][private$selectFields]
biodb.TRACE[2024-11-27 22:36:40.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:40.204][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:40.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.210][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.211][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.215][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.216][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.217][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.218][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.219][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.222][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.223][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:40.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.238][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-27 22:36:40.239][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-27 22:36:40.240][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-27 22:36:40.250][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:40.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:40.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:36:40.260][biodb::testThat]
biodb.INFO [2024-11-27 22:36:40.261][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-11-27 22:36:40.262][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:40.263][biodb::testThat]
biodb.TRACE[2024-11-27 22:36:40.267][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-27 22:36:40.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-27 22:36:40.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:40.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:40.310][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:40.313][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:40.315][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-11-27 22:36:40.316][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:40.319][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-11-27 22:36:40.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:40.349][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:40.353][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:40.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-11-27 22:36:40.356][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:40.358][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-11-27 22:36:40.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:40.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:40.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:40.420][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-27 22:36:40.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:40.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.443][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.444][private$selectFields]
biodb.TRACE[2024-11-27 22:36:40.445][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:40.446][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:40.447][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.454][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.456][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.462][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.465][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.469][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.471][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.473][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:40.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.488][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-11-27 22:36:40.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:40.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:40.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:40.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:40.523][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[2024-11-27 22:36:40.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.534][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.535][private$selectFields]
biodb.TRACE[2024-11-27 22:36:40.536][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:40.537][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:40.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.541][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.543][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.544][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.545][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.547][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.550][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:40.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.554][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.555][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:40.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:40.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:40.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:40.571][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-27 22:36:40.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:40.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:40.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:41.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:41.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:41.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:41.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:41.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.113][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:41.115][private$selectFields]
biodb.TRACE[2024-11-27 22:36:41.117][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:41.118][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:41.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:41.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.124][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.129][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:41.132][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:41.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.136][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.137][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:41.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:41.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.153][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-11-27 22:36:41.154][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-27 22:36:41.156][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-27 22:36:41.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:41.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:41.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:41.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:41.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:41.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:41.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:42.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:42.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:42.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:42.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:42.253][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:42.257][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:42.258][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-11-27 22:36:42.260][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:42.262][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-11-27 22:36:42.266][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:42.269][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:42.271][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-11-27 22:36:42.272][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:42.274][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-11-27 22:36:42.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:42.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:42.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:42.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:42.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:42.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:42.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:42.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:42.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:42.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:42.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:42.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:42.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:42.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:42.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:42.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:42.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:42.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:42.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:42.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:42.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:42.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:42.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:42.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:42.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:42.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:42.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:42.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:42.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:42.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:43.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:43.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:43.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:43.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:43.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:43.170][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-11-27 22:36:43.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:43.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:43.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:43.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:43.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:43.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:43.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:43.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.264][private$selectFields]
biodb.TRACE[2024-11-27 22:36:43.266][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:43.267][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:43.268][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.274][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.280][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.285][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.286][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.287][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.290][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.292][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:43.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.307][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-11-27 22:36:43.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:43.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:43.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:43.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:43.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:43.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:43.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:43.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.332][private$selectFields]
biodb.TRACE[2024-11-27 22:36:43.333][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:43.334][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:43.335][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.340][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.345][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.347][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.348][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.349][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.352][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.353][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.368][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-11-27 22:36:43.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:43.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:43.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:43.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:43.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:43.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:43.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:43.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.393][private$selectFields]
biodb.TRACE[2024-11-27 22:36:43.394][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-11-27 22:36:43.395][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-11-27 22:36:43.396][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.401][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.403][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.405][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.406][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.407][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-11-27 22:36:43.408][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.410][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.412][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.413][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-11-27 22:36:43.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.428][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-11-27 22:36:43.429][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-11-27 22:36:43.431][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-11-27 22:36:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:43.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-11-27 22:36:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-27 22:36:43.470][biodb::testThat]
biodb.INFO [2024-11-27 22:36:43.471][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-11-27 22:36:43.472][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:43.473][biodb::testThat]
biodb.DEBUG[2024-11-27 22:36:43.476][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-11-27 22:36:43.477][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:36:43.479][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-11-27 22:36:43.480][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:43.494][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2024-11-27 22:36:43.495][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:36:43.497][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:36:43.498][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:43.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:43.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:43.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:43.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:43.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:43.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:43.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:43.514][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.524][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:43.525][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:43.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.527][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.528][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:43.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:43.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.532][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.533][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:43.535][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:43.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.537][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.538][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:43.539][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:43.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.542][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.543][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:43.544][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:43.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.546][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.548][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:43.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:43.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.551][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.554][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:43.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.556][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.557][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:43.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:43.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.561][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.562][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:43.564][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:43.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.566][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:43.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:43.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.571][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:43.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:43.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:43.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:43.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:43.619][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-11-27 22:36:43.620][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-11-27 22:36:43.632][biodb::testThat]
biodb.INFO [2024-11-27 22:36:43.633][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-11-27 22:36:43.634][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:43.635][biodb::testThat]
biodb.DEBUG[2024-11-27 22:36:44.442][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-11-27 22:36:44.444][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-11-27 22:36:44.445][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-11-27 22:36:44.447][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.INFO [2024-11-27 22:36:44.449][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-11-27 22:36:44.450][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-11-27 22:36:44.452][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:36:44.453][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:36:44.454][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:36:44.455][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:36:44.457][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:36:44.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:44.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:44.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:44.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:44.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:44.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:44.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:44.502][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-11-27 22:36:44.505][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:44.506][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:44.508][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-11-27 22:36:44.923][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-11-27 22:36:45.326][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:45.331][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-11-27 22:36:45.337][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-11-27 22:36:45.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:45.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:45.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:45.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:45.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:45.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:45.374][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[2024-11-27 22:36:45.377][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-11-27 22:36:45.382][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:45.384][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:45.386][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-11-27 22:36:45.792][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-11-27 22:36:46.210][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:46.213][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-11-27 22:36:46.218][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-11-27 22:36:46.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:46.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:46.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:46.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:46.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:46.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:46.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:46.234][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-11-27 22:36:46.237][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:46.238][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:46.240][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-11-27 22:36:46.648][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-11-27 22:36:47.050][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:47.053][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-11-27 22:36:47.057][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-11-27 22:36:47.061][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-11-27 22:36:47.064][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:36:47.065][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-11-27 22:36:47.067][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-11-27 22:36:47.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:47.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:47.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:47.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:47.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:47.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:47.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:47.111][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.113][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.115][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.121][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:47.122][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:47.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.124][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.126][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:47.127][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:47.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.129][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.131][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:47.132][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:47.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.134][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.139][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.140][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.142][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.144][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.145][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:47.146][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:47.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.149][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.150][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.151][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.153][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.155][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:47.156][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:47.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.158][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.160][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:47.161][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:47.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.163][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.164][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:47.166][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:47.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.168][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:47.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:47.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:47.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:47.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:47.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:47.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:47.214][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.TRACE[2024-11-27 22:36:47.217][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.218][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.220][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.227][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:47.228][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:47.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.230][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.232][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:47.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:47.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.236][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:47.238][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:47.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.240][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.241][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:47.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:47.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.246][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:47.247][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:47.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.250][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:47.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:47.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.256][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.257][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.259][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.266][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.267][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.271][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.275][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:47.277][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:47.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.279][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.280][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:47.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:47.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.289][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.295][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:47.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:47.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:47.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:47.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.305][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:47.306][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:47.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.308][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.309][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:47.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:47.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:47.315][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:47.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.318][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.319][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:47.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:47.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:47.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:47.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:47.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:47.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:47.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:47.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:47.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:36:47.406][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.410][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.416][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:47.417][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:47.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.420][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.421][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:36:47.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:36:47.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.426][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:47.427][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:47.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.430][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.431][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:36:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:36:47.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:47.437][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:47.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.440][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:36:47.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:36:47.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.446][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.447][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.449][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:36:47.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.456][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.457][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.459][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.461][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:36:47.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.472][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:47.473][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:47.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.475][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.477][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:36:47.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:36:47.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.485][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:47.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.491][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:47.492][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:47.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.494][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.496][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:47.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:47.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.501][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:47.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:47.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.504][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:36:47.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:36:47.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.510][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:47.511][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:47.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.513][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.515][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:36:47.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:36:47.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:36:47.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:36:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:36:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:36:47.593][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-11-27 22:36:47.594][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-11-27 22:36:47.595][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-11-27 22:36:47.674][biodb::testThat]
biodb.INFO [2024-11-27 22:36:47.675][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-11-27 22:36:47.676][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:47.678][biodb::testThat]
biodb.INFO [2024-11-27 22:36:47.715][biodb::testThat]
biodb.INFO [2024-11-27 22:36:47.716][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-11-27 22:36:47.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:47.719][biodb::testThat]
biodb.INFO [2024-11-27 22:36:47.738][biodb::testThat]
biodb.INFO [2024-11-27 22:36:47.740][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-11-27 22:36:47.742][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:47.744][biodb::testThat]
biodb.DEBUG[2024-11-27 22:36:47.749][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:47.755][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:47.756][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:47.760][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:48.246][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:36:48.822][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2024-11-27 22:36:48.825][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-11-27 22:36:48.828][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-11-27 22:36:48.833][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-11-27 22:36:48.849][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:36:48.851][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:36:48.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:48.853][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:36:48.854][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:48.855][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:36:48.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:36:48.858][ef$get] fields variable is a list.
biodb.INFO [2024-11-27 22:36:48.860][biodb::testThat]
biodb.INFO [2024-11-27 22:36:48.861][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2024-11-27 22:36:48.862][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:48.863][biodb::testThat]
biodb.ERROR[2024-11-27 22:36:48.879][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-11-27 22:36:49.039][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-11-27 22:36:49.073][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-27 22:36:49.075][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-27 22:36:49.076][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-27 22:36:49.077][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-27 22:36:49.078][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:49.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:49.081][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.083][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.084][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.INFO [2024-11-27 22:36:49.495][biodb::testContext]
biodb.INFO [2024-11-27 22:36:49.496][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:36:49.497][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-11-27 22:36:49.499][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:36:49.500][biodb::testContext]
biodb.INFO [2024-11-27 22:36:49.503][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:36:49.505][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-27 22:36:49.510][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:36:49.511][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-27 22:36:49.513][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-27 22:36:49.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.517][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-27 22:36:49.518][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-27 22:36:49.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.522][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[2024-11-27 22:36:49.523][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-27 22:36:49.524][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-27 22:36:49.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.528][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-27 22:36:49.530][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-27 22:36:49.531][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-27 22:36:49.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.534][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[2024-11-27 22:36:49.535][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-27 22:36:49.536][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-27 22:36:49.538][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-27 22:36:49.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.542][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-27 22:36:49.543][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-27 22:36:49.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.548][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-27 22:36:49.549][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-27 22:36:49.550][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-27 22:36:49.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.554][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-27 22:36:49.556][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-27 22:36:49.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.560][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-27 22:36:49.561][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-27 22:36:49.562][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-27 22:36:49.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.567][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:36:49.568][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-27 22:36:49.569][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-27 22:36:49.570][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-27 22:36:49.578][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-27 22:36:49.580][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-27 22:36:49.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.584][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-27 22:36:49.585][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-27 22:36:49.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.590][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-27 22:36:49.591][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-27 22:36:49.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.595][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-27 22:36:49.596][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-27 22:36:49.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.601][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-27 22:36:49.602][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-27 22:36:49.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.606][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-27 22:36:49.607][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-27 22:36:49.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.612][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:36:49.613][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-27 22:36:49.618][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-27 22:36:49.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.625][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-27 22:36:49.627][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-27 22:36:49.629][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-27 22:36:49.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.636][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-27 22:36:49.639][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.641][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-27 22:36:49.643][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.645][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:36:49.647][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.649][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.651][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.653][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.655][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:36:49.657][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:36:49.659][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.661][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-27 22:36:49.663][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:36:49.665][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.667][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.669][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:36:49.669][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:36:49.669][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:36:49.669][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:36:49.669][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:36:49.671][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:36:49.673][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.674][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.676][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:36:49.678][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.680][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.682][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.684][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.685][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:36:49.687][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:36:49.689][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.691][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.693][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-27 22:36:49.696][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.698][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:36:49.700][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:36:49.704][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.706][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.708][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.710][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.712][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:36:49.714][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:36:49.716][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.718][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-27 22:36:49.720][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:36:49.721][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.723][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.725][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:36:49.725][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:36:49.725][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:36:49.725][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:36:49.725][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:36:49.727][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:36:49.729][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.731][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.732][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:36:49.734][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.736][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.737][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.739][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.741][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:36:49.743][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:36:49.745][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.746][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.749][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-27 22:36:49.752][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.753][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-27 22:36:49.755][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.757][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:36:49.759][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.761][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.763][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.765][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.766][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:36:49.768][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:36:49.770][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.771][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-27 22:36:49.773][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:36:49.774][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.775][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.776][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.777][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:36:49.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.779][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.781][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:36:49.782][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.783][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.784][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.785][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.786][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:36:49.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:36:49.789][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.790][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.791][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-27 22:36:49.793][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.794][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:36:49.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:36:49.798][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.799][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.800][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.802][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.803][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:36:49.804][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:36:49.805][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.806][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-27 22:36:49.808][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:36:49.809][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.810][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:49.811][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.812][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:36:49.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.816][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:36:49.817][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:49.818][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:49.819][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:36:49.820][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.822][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:36:49.823][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:36:49.824][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:49.825][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:36:49.827][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:36:49.828][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.872][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[2024-11-27 22:36:49.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.899][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[2024-11-27 22:36:49.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.910][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[2024-11-27 22:36:49.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:49.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:49.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:49.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:49.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:49.923][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-27 22:36:49.924][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-27 22:36:49.926][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-27 22:36:49.928][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-27 22:36:49.929][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:36:49.931][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:36:49.932][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-27 22:36:49.934][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-27 22:36:49.935][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-27 22:36:49.937][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:36:49.939][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:36:49.940][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-27 22:36:49.942][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-27 22:36:49.943][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-27 22:36:49.945][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-27 22:36:49.946][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:36:49.948][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-27 22:36:49.949][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-27 22:36:49.951][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:36:49.953][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-27 22:36:49.954][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-27 22:36:49.956][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-27 22:36:49.957][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-27 22:36:49.959][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-27 22:36:49.960][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-27 22:36:49.962][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-27 22:36:49.964][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-27 22:36:49.965][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-27 22:36:49.967][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-27 22:36:49.968][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-27 22:36:49.970][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-27 22:36:49.971][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-27 22:36:49.973][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-27 22:36:49.975][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-27 22:36:49.976][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-27 22:36:49.978][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-27 22:36:49.979][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-27 22:36:49.981][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-27 22:36:49.982][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-27 22:36:49.984][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-27 22:36:49.985][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-27 22:36:49.987][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-27 22:36:49.989][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-27 22:36:49.990][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-27 22:36:49.992][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-27 22:36:49.993][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-27 22:36:49.995][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-27 22:36:49.996][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-27 22:36:49.998][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-27 22:36:50.000][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-27 22:36:50.001][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-27 22:36:50.003][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-27 22:36:50.004][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-27 22:36:50.006][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-27 22:36:50.007][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-27 22:36:50.009][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-27 22:36:50.010][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-27 22:36:50.012][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-27 22:36:50.019][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-27 22:36:50.021][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-27 22:36:50.022][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-27 22:36:50.024][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-27 22:36:50.025][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-27 22:36:50.027][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-27 22:36:50.028][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-27 22:36:50.030][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-27 22:36:50.031][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:36:50.033][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:36:50.034][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-27 22:36:50.036][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-27 22:36:50.038][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-27 22:36:50.039][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-27 22:36:50.041][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-27 22:36:50.042][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-27 22:36:50.044][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-27 22:36:50.045][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-27 22:36:50.047][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-27 22:36:50.048][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-27 22:36:50.050][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-27 22:36:50.051][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-27 22:36:50.053][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-27 22:36:50.055][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-27 22:36:50.056][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-27 22:36:50.058][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-27 22:36:50.060][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:36:50.061][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:36:50.062][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.064][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.125][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.DEBUG[2024-11-27 22:36:50.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.169][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[2024-11-27 22:36:50.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:36:50.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:50.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:50.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:50.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:50.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:50.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:50.408][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-27 22:36:50.425][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-27 22:36:50.428][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:50.429][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-27 22:36:50.430][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:50.431][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:36:50.433][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:50.434][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:36:50.435][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:50.436][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-27 22:36:50.437][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-27 22:36:50.439][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:36:50.440][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:50.441][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-27 22:36:50.442][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-27 22:36:50.443][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-27 22:36:50.445][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-27 22:36:50.446][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:36:50.446][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:36:50.446][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:36:50.447][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-27 22:36:50.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:50.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:50.451][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:36:50.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:36:50.453][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:36:50.454][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:36:50.455][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:36:50.455][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-27 22:36:50.456][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:36:50.457][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:36:50.458][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-27 22:36:50.460][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-27 22:36:50.460][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-27 22:36:50.461][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:36:50.463][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:36:50.465][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-27 22:36:50.466][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:36:50.468][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:36:50.470][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:36:50.473][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-27 22:36:50.475][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-27 22:36:50.477][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-27 22:36:50.480][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-27 22:36:50.482][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:36:50.484][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:36:50.486][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-27 22:36:50.488][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-27 22:36:50.491][biodb::testThat]
biodb.INFO [2024-11-27 22:36:50.492][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2024-11-27 22:36:50.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:50.494][biodb::testThat]
biodb.DEBUG[2024-11-27 22:36:50.498][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-27 22:36:50.503][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:50.504][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:50.506][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-11-27 22:36:50.895][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-11-27 22:36:51.379][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:51.382][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-11-27 22:36:51.386][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-11-27 22:36:51.407][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:51.411][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:51.412][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:51.414][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:51.817][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:36:52.218][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:52.220][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-11-27 22:36:52.225][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-11-27 22:36:52.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:52.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:52.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:52.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:52.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:52.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:52.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:52.255][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:52.259][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:52.260][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:52.262][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:52.667][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:36:53.092][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:53.095][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-11-27 22:36:53.099][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-11-27 22:36:53.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:53.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:53.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:53.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:53.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:53.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:53.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:53.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:53.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:53.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:55.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:55.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:55.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:55.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:55.851][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:55.854][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:55.856][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-11-27 22:36:55.857][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:55.859][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-11-27 22:36:55.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:55.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:55.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:55.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:55.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:55.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:55.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:55.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:55.878][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:55.879][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-11-27 22:36:55.881][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:55.883][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-11-27 22:36:55.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:55.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:55.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:55.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:55.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:55.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:55.896][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[2024-11-27 22:36:55.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:55.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:55.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:55.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:55.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:55.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:55.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:55.912][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:55.915][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:55.917][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-11-27 22:36:55.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:55.921][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-11-27 22:36:55.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:55.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:55.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:55.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:55.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:55.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:55.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:55.936][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:55.939][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:36:55.941][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-11-27 22:36:55.942][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:36:55.944][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-11-27 22:36:55.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:55.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:55.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:55.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:55.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:55.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:55.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:55.960][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:55.963][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:55.965][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:55.967][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:56.378][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:36:56.780][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:56.783][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-11-27 22:36:56.788][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-11-27 22:36:56.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:56.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:56.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:58.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:58.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:58.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:58.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-27 22:36:58.216][biodb::testThat]
biodb.INFO [2024-11-27 22:36:58.217][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2024-11-27 22:36:58.218][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:36:58.219][biodb::testThat]
biodb.DEBUG[2024-11-27 22:36:58.223][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:58.227][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:58.228][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:58.230][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:58.652][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:36:59.051][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:36:59.054][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-11-27 22:36:59.059][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-11-27 22:36:59.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:36:59.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:36:59.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:36:59.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:36:59.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:36:59.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:36:59.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:36:59.344][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:36:59.347][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:36:59.348][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:36:59.350][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:36:59.758][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:37:00.171][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:37:00.174][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-11-27 22:37:00.180][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-11-27 22:37:00.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:37:00.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-27 22:37:00.219][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-27 22:37:00.221][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-27 22:37:00.223][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-27 22:37:00.225][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-27 22:37:00.227][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.230][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.234][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-27 22:37:00.253][biodb::testContext]
biodb.INFO [2024-11-27 22:37:00.254][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:37:00.256][biodb::testContext] Test context - Test web services
biodb.INFO [2024-11-27 22:37:00.258][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:37:00.259][biodb::testContext]
biodb.INFO [2024-11-27 22:37:00.262][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:37:00.264][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-27 22:37:00.269][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:37:00.270][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-27 22:37:00.272][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-27 22:37:00.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.276][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-27 22:37:00.277][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-27 22:37:00.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.282][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-27 22:37:00.283][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-27 22:37:00.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.287][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-27 22:37:00.289][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-27 22:37:00.290][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-27 22:37:00.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.293][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[2024-11-27 22:37:00.295][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-27 22:37:00.296][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-27 22:37:00.297][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-27 22:37:00.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.301][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-27 22:37:00.303][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-27 22:37:00.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.307][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-27 22:37:00.308][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-27 22:37:00.309][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-27 22:37:00.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.314][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-27 22:37:00.315][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-27 22:37:00.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.319][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-27 22:37:00.321][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-27 22:37:00.322][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-27 22:37:00.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.326][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:37:00.328][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-27 22:37:00.329][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-27 22:37:00.330][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-27 22:37:00.331][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-27 22:37:00.332][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-27 22:37:00.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.337][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-27 22:37:00.338][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-27 22:37:00.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.343][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-27 22:37:00.344][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-27 22:37:00.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.348][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-27 22:37:00.350][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-27 22:37:00.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.354][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-27 22:37:00.356][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-27 22:37:00.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.360][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-27 22:37:00.362][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-27 22:37:00.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.366][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:37:00.376][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-27 22:37:00.380][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-27 22:37:00.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.383][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[2024-11-27 22:37:00.384][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-27 22:37:00.385][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-27 22:37:00.386][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-27 22:37:00.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.391][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-27 22:37:00.393][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.394][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-27 22:37:00.395][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.396][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:00.398][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.399][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.400][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.401][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.403][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:37:00.404][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:00.405][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.406][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-27 22:37:00.407][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:00.409][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.410][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.411][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:37:00.411][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:37:00.411][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:37:00.411][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:37:00.411][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:37:00.412][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:00.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.416][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:00.417][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.418][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.419][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.420][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.421][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:00.422][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:00.424][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.425][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.426][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-27 22:37:00.429][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.430][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:37:00.431][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.432][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:00.433][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.435][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.436][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.437][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.438][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:37:00.439][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:00.440][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.442][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-27 22:37:00.443][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:00.444][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.445][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.446][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:37:00.446][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:37:00.446][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:37:00.446][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:37:00.446][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:37:00.448][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:00.449][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.450][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.451][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:00.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.453][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.454][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.455][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.457][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:00.458][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:00.459][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.460][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.461][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-27 22:37:00.463][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.465][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-27 22:37:00.466][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.467][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:00.468][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.469][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.471][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.472][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.473][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:37:00.474][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:00.475][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.477][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-27 22:37:00.478][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:00.479][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.480][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.481][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.482][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:00.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.485][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.486][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:00.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.490][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:00.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:00.494][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.495][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.496][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-27 22:37:00.498][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.499][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:37:00.501][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.502][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:00.503][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.504][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.505][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.507][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.508][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:37:00.509][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:00.510][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.511][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-27 22:37:00.513][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:00.514][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.515][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:00.516][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.517][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:00.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.521][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:00.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:00.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:00.524][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:00.525][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.527][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:00.528][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:00.529][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:00.530][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:00.532][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:37:00.533][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.534][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[2024-11-27 22:37:00.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.539][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[2024-11-27 22:37:00.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.627][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[2024-11-27 22:37:00.629][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-27 22:37:00.630][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-27 22:37:00.632][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-27 22:37:00.633][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-27 22:37:00.635][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:37:00.637][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:37:00.638][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-27 22:37:00.640][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-27 22:37:00.641][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-27 22:37:00.643][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:37:00.644][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:37:00.646][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-27 22:37:00.648][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-27 22:37:00.649][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-27 22:37:00.651][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-27 22:37:00.652][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:37:00.654][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-27 22:37:00.655][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-27 22:37:00.657][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:37:00.659][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-27 22:37:00.660][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-27 22:37:00.662][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-27 22:37:00.663][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-27 22:37:00.665][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-27 22:37:00.666][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-27 22:37:00.668][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-27 22:37:00.670][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-27 22:37:00.671][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-27 22:37:00.673][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-27 22:37:00.674][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-27 22:37:00.676][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-27 22:37:00.678][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-27 22:37:00.679][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-27 22:37:00.681][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-27 22:37:00.682][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-27 22:37:00.684][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-27 22:37:00.686][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-27 22:37:00.687][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-27 22:37:00.689][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-27 22:37:00.690][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-27 22:37:00.692][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-27 22:37:00.693][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-27 22:37:00.695][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-27 22:37:00.697][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-27 22:37:00.699][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-27 22:37:00.700][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-27 22:37:00.702][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-27 22:37:00.703][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-27 22:37:00.705][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-27 22:37:00.707][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-27 22:37:00.708][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-27 22:37:00.710][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-27 22:37:00.712][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-27 22:37:00.713][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-27 22:37:00.715][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-27 22:37:00.716][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-27 22:37:00.718][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-27 22:37:00.720][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-27 22:37:00.722][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-27 22:37:00.723][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-27 22:37:00.725][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-27 22:37:00.726][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-27 22:37:00.728][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-27 22:37:00.730][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-27 22:37:00.731][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-27 22:37:00.733][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-27 22:37:00.735][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:37:00.736][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:37:00.738][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-27 22:37:00.740][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-27 22:37:00.741][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-27 22:37:00.743][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-27 22:37:00.744][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-27 22:37:00.746][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-27 22:37:00.748][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-27 22:37:00.749][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-27 22:37:00.756][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-27 22:37:00.758][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-27 22:37:00.760][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-27 22:37:00.761][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-27 22:37:00.763][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-27 22:37:00.764][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-27 22:37:00.766][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-27 22:37:00.768][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-27 22:37:00.770][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:37:00.771][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:37:00.772][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.774][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:00.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:00.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:00.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:00.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:00.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:00.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:00.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:01.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:01.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:01.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:01.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:01.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:01.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:01.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:01.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:01.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:01.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:01.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:01.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:01.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:01.027][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[2024-11-27 22:37:01.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:01.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:01.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:01.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:01.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:01.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:01.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:01.051][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-27 22:37:01.069][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-27 22:37:01.072][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:01.073][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-27 22:37:01.075][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:01.077][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:01.079][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:01.081][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:01.083][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:01.086][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-27 22:37:01.088][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-27 22:37:01.090][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:01.092][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:01.094][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-27 22:37:01.096][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-27 22:37:01.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-27 22:37:01.100][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:01.102][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:37:01.102][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:37:01.102][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:37:01.104][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-27 22:37:01.106][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:01.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:01.109][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:01.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:01.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:01.115][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:01.117][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:37:01.117][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-27 22:37:01.119][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:01.120][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:01.122][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:01.124][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-27 22:37:01.124][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-27 22:37:01.127][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:37:01.130][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:37:01.133][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-27 22:37:01.135][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:37:01.138][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:37:01.141][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:37:01.147][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-27 22:37:01.149][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-27 22:37:01.151][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-27 22:37:01.154][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-27 22:37:01.156][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:37:01.158][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:37:01.161][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-27 22:37:01.163][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-27 22:37:01.166][biodb::testThat]
biodb.INFO [2024-11-27 22:37:01.168][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-11-27 22:37:01.169][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:37:01.171][biodb::testThat]
biodb.DEBUG[2024-11-27 22:37:01.177][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-27 22:37:01.184][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:37:01.187][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-27 22:37:01.189][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:37:01.194][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-27 22:37:01.214][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:37:01.218][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:37:01.219][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:37:01.221][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-11-27 22:37:01.618][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-11-27 22:37:02.019][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:37:02.022][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-11-27 22:37:02.027][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-11-27 22:37:02.042][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-27 22:37:02.044][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-27 22:37:02.046][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-27 22:37:02.047][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-27 22:37:02.048][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.050][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.052][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-27 22:37:02.063][biodb::testContext]
biodb.INFO [2024-11-27 22:37:02.065][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:37:02.066][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-11-27 22:37:02.067][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-27 22:37:02.068][biodb::testContext]
biodb.INFO [2024-11-27 22:37:02.071][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:37:02.073][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-11-27 22:37:02.079][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:37:02.080][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-27 22:37:02.081][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-27 22:37:02.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.084][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[2024-11-27 22:37:02.085][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-27 22:37:02.087][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-27 22:37:02.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.091][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-27 22:37:02.092][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-27 22:37:02.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.097][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-27 22:37:02.098][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-27 22:37:02.099][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-27 22:37:02.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.104][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-27 22:37:02.105][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-27 22:37:02.106][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-27 22:37:02.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.109][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[2024-11-27 22:37:02.110][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-27 22:37:02.112][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-27 22:37:02.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.116][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-27 22:37:02.117][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-27 22:37:02.118][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-27 22:37:02.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.124][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-27 22:37:02.125][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-27 22:37:02.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.130][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-27 22:37:02.131][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-27 22:37:02.132][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-27 22:37:02.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.137][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:37:02.138][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-27 22:37:02.139][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-27 22:37:02.140][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-27 22:37:02.141][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-27 22:37:02.143][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-27 22:37:02.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.147][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-27 22:37:02.156][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-27 22:37:02.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.160][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-27 22:37:02.161][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-27 22:37:02.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.165][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-27 22:37:02.167][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-27 22:37:02.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.171][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-27 22:37:02.172][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-27 22:37:02.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.177][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-27 22:37:02.178][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-27 22:37:02.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.182][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-27 22:37:02.183][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-27 22:37:02.187][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-27 22:37:02.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.191][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-27 22:37:02.192][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-27 22:37:02.194][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-27 22:37:02.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.199][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-27 22:37:02.201][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.202][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-27 22:37:02.203][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.204][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:02.206][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.207][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.208][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.209][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.210][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:37:02.211][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:02.213][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.214][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-27 22:37:02.216][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:02.217][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.219][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.221][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:37:02.221][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:37:02.221][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:37:02.221][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:37:02.221][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:37:02.223][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:02.224][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.225][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.226][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:02.227][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.228][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.230][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.231][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.232][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:02.233][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:02.234][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.235][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.237][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-27 22:37:02.239][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.240][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:37:02.241][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.242][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:02.244][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.246][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.247][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.248][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:37:02.250][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:02.251][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.252][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-27 22:37:02.253][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:02.254][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.255][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.257][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:37:02.257][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:37:02.257][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:37:02.257][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-27 22:37:02.257][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-27 22:37:02.258][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:02.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.260][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.261][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:02.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.265][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.266][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.267][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:02.268][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:02.269][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.270][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.272][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-27 22:37:02.274][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.275][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-27 22:37:02.276][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.277][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:02.278][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.279][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.281][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.282][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.283][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-27 22:37:02.284][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:02.285][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.287][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-27 22:37:02.288][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:02.289][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.290][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.291][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.292][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:02.294][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.295][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.296][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:02.297][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.298][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.299][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.300][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.302][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:02.303][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:02.304][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.305][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.306][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-27 22:37:02.308][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.310][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-27 22:37:02.311][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.312][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:02.313][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.315][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.316][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.317][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.318][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-27 22:37:02.319][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:02.321][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.322][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-27 22:37:02.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:02.324][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.325][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.327][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.328][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-27 22:37:02.329][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.330][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.331][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:02.332][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.333][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.335][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.336][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.337][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:02.338][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:02.339][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.341][self$setPropertyValue]
biodb.DEBUG[2024-11-27 22:37:02.343][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:37:02.345][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.372][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".
biodb.DEBUG[2024-11-27 22:37:02.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.377][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[2024-11-27 22:37:02.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.383][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[2024-11-27 22:37:02.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.416][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[2024-11-27 22:37:02.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.449][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-27 22:37:02.451][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-27 22:37:02.453][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-27 22:37:02.454][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-27 22:37:02.456][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:37:02.458][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-27 22:37:02.459][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-27 22:37:02.461][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-27 22:37:02.462][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-27 22:37:02.464][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-27 22:37:02.466][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:37:02.467][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-27 22:37:02.469][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-27 22:37:02.470][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-27 22:37:02.472][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-27 22:37:02.474][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-27 22:37:02.475][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-27 22:37:02.477][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-27 22:37:02.478][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:37:02.480][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-27 22:37:02.481][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-27 22:37:02.483][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-27 22:37:02.484][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-27 22:37:02.486][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-27 22:37:02.488][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-27 22:37:02.489][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-27 22:37:02.491][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-27 22:37:02.492][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-27 22:37:02.494][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-27 22:37:02.495][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-27 22:37:02.497][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-27 22:37:02.499][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-27 22:37:02.500][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-27 22:37:02.502][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-27 22:37:02.503][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-27 22:37:02.505][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-27 22:37:02.506][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-27 22:37:02.508][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-27 22:37:02.509][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-27 22:37:02.511][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-27 22:37:02.513][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-27 22:37:02.514][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-27 22:37:02.516][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-27 22:37:02.517][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-27 22:37:02.519][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-27 22:37:02.520][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-27 22:37:02.522][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-27 22:37:02.524][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-27 22:37:02.525][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-27 22:37:02.527][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-27 22:37:02.528][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-27 22:37:02.530][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-27 22:37:02.531][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-27 22:37:02.533][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-27 22:37:02.534][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-27 22:37:02.536][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-27 22:37:02.537][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-27 22:37:02.545][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-27 22:37:02.546][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-27 22:37:02.548][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-27 22:37:02.549][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-27 22:37:02.551][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-27 22:37:02.552][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-27 22:37:02.554][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-27 22:37:02.556][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-27 22:37:02.557][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-27 22:37:02.559][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:37:02.560][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:37:02.562][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-27 22:37:02.563][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-27 22:37:02.565][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-27 22:37:02.566][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-27 22:37:02.568][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-27 22:37:02.569][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-27 22:37:02.571][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-27 22:37:02.572][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-27 22:37:02.574][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-27 22:37:02.575][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-27 22:37:02.577][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-27 22:37:02.578][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-27 22:37:02.580][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-27 22:37:02.581][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-27 22:37:02.583][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-27 22:37:02.585][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-27 22:37:02.587][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-11-27 22:37:02.588][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-27 22:37:02.589][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.592][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.615][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[2024-11-27 22:37:02.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.666][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[2024-11-27 22:37:02.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.678][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.DEBUG[2024-11-27 22:37:02.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.690][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[2024-11-27 22:37:02.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-27 22:37:02.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.753][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[2024-11-27 22:37:02.755][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-11-27 22:37:02.757][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-11-27 22:37:02.759][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.761][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.762][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.763][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-27 22:37:02.764][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.765][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.767][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.768][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-11-27 22:37:02.769][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-27 22:37:02.770][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-27 22:37:02.771][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.773][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-11-27 22:37:02.774][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-11-27 22:37:02.775][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-11-27 22:37:02.776][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-27 22:37:02.778][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-27 22:37:02.778][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-27 22:37:02.778][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-27 22:37:02.779][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-27 22:37:02.780][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.781][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.782][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-27 22:37:02.783][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-27 22:37:02.784][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-27 22:37:02.785][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-27 22:37:02.787][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:37:02.787][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-11-27 22:37:02.788][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-27 22:37:02.789][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-27 22:37:02.791][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-27 22:37:02.792][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-11-27 22:37:02.792][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-11-27 22:37:02.793][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-27 22:37:02.795][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-27 22:37:02.797][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-11-27 22:37:02.799][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-27 22:37:02.800][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-27 22:37:02.802][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-27 22:37:02.805][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-11-27 22:37:02.807][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-11-27 22:37:02.808][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-11-27 22:37:02.810][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-11-27 22:37:02.811][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:37:02.812][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-27 22:37:02.814][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-11-27 22:37:02.815][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-11-27 22:37:02.817][biodb::testThat]
biodb.INFO [2024-11-27 22:37:02.818][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-11-27 22:37:02.819][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-27 22:37:02.821][biodb::testThat]
biodb.DEBUG[2024-11-27 22:37:02.824][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-11-27 22:37:02.829][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:37:02.831][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-11-27 22:37:02.832][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:37:02.835][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-11-27 22:37:02.839][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-11-27 22:37:02.843][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-11-27 22:37:02.845][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-11-27 22:37:02.846][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-27 22:37:02.849][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-11-27 22:37:02.853][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-11-27 22:37:02.855][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-11-27 22:37:02.856][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-11-27 22:37:02.858][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-27 22:37:02.859][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-27 22:37:02.861][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-11-27 22:37:02.862][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-11-27 22:37:02.863][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-11-27 22:37:02.864][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-11-27 22:37:02.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:37:02.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:02.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:02.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:02.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:02.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:02.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-27 22:37:02.885][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-11-27 22:37:02.888][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-11-27 22:37:02.889][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-11-27 22:37:02.891][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-11-27 22:37:03.311][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-11-27 22:37:04.286][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-11-27 22:37:04.288][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-11-27 22:37:04.294][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-11-27 22:37:04.297][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-11-27 22:37:04.300][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-11-27 22:37:04.302][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-11-27 22:37:04.303][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-11-27 22:37:04.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-27 22:37:04.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:04.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:04.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:04.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:04.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:04.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-27 22:37:04.329][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.331][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.333][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.340][ef$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:37:04.341][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:37:04.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.344][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.345][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-11-27 22:37:04.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-11-27 22:37:04.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.350][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:37:04.352][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:37:04.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.354][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.356][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-27 22:37:04.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-27 22:37:04.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.361][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-27 22:37:04.362][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-27 22:37:04.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.365][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-27 22:37:04.368][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-27 22:37:04.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.370][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.372][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:37:04.373][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:37:04.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.383][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.384][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:37:04.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-27 22:37:04.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.389][ef$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:37:04.390][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:37:04.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.393][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.394][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-11-27 22:37:04.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-11-27 22:37:04.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:37:04.400][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:37:04.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.402][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:37:04.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-27 22:37:04.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.409][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:37:04.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:37:04.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.412][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-27 22:37:04.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-27 22:37:04.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.420][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:37:04.421][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:37:04.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.423][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.425][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-11-27 22:37:04.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-11-27 22:37:04.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.430][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:37:04.431][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:37:04.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.434][ef$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.437][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-27 22:37:04.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-27 22:37:04.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:37:04.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:37:04.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:37:04.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:37:04.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-27 22:37:04.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-27 22:37:04.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-27 22:37:04.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-27 22:37:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-27 22:37:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-27 22:37:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-27 22:37:04.505][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-11-27 22:37:04.521][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-27 22:37:04.522][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-11-27 22:37:04.524][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-11-27 22:37:04.525][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-27 22:37:04.526][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-27 22:37:04.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-27 22:37:04.528][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-27 22:37:04.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-27 22:37:04.530][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-27 22:37:04.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 385 ]
>
> proc.time()
user system elapsed
24.07 1.70 114.11
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 3.69 | 1.75 | 67.30 | |
| ChebiEntry | 0.47 | 0.00 | 0.47 | |