Pierrick Roger
| Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022) |
| git_url: https://git.bioconductor.org/packages/biodb |
| git_branch: RELEASE_3_14 |
| git_last_commit: 79469df |
| git_last_commit_date: 2021-12-10 12:32:56 -0500 (Fri, 10 Dec 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-01-21 13:06:01 -0500 (Fri, 21 Jan 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.2 (2021-11-01) -- "Bird Hippie" | 4329 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.2 (2021-11-01) -- "Bird Hippie" | 4079 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.2 (2021-11-01) -- "Bird Hippie" | 4140 |
| 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 | ||||
|
To the developers/maintainers of the biodb package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodb.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 175/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodb 1.2.2 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: biodb |
| Version: 1.2.2 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:biodb.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings biodb_1.2.2.tar.gz |
| StartedAt: 2022-01-20 16:36:19 -0500 (Thu, 20 Jan 2022) |
| EndedAt: 2022-01-20 16:47:28 -0500 (Thu, 20 Jan 2022) |
| EllapsedTime: 668.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodb.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:biodb.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings biodb_1.2.2.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/biodb.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'biodb/DESCRIPTION' ... OK
* this is package 'biodb' version '1.2.2'
* 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 'biodb' can be installed ... OK
* checking installed package size ... NOTE
installed size is 7.4Mb
sub-directories of 1Mb or more:
R 2.1Mb
html 1.0Mb
libs 2.7Mb
* 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 R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/libs/i386/biodb.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/libs/x64/biodb.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
upgradeExtPkg 3.46 0.01 5.21
genNewExtPkg 3.15 0.05 10.74
ExtConnClass 0.26 0.02 7.16
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ExtPackage 3.72 0.08 9.14
genNewExtPkg 3.22 0.07 6.26
ExtGenerator 2.97 0.06 7.92
ExtCpp 0.61 0.00 7.81
ExtConnClass 0.33 0.02 5.18
ExtMakefile 0.31 0.02 5.14
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'testthat.R'
OK
** running tests for arch 'x64' ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/biodb.Rcheck/00check.log'
for details.
biodb.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/biodb_1.2.2.tar.gz && rm -rf biodb.buildbin-libdir && mkdir biodb.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=biodb.buildbin-libdir biodb_1.2.2.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL biodb_1.2.2.zip && rm biodb_1.2.2.tar.gz biodb_1.2.2.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
99 2665k 99 2661k 0 0 3159k 0 --:--:-- --:--:-- --:--:-- 3161k
100 2665k 100 2665k 0 0 3162k 0 --:--:-- --:--:-- --:--:-- 3161k
install for i386
* installing *source* package 'biodb' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c closeMatchPpm.cpp -o closeMatchPpm.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-100-ms_matching.cpp -o test-100-ms_matching.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-runner.cpp -o test-runner.o
In file included from C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat.h:1,
from test-runner.cpp:7:
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cout()':
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h:145:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cerr()':
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h:152:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o biodb.dll tmp.def RcppExports.o closeMatchPpm.o test-100-ms_matching.o test-runner.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/biodb.buildbin-libdir/00LOCK-biodb/00new/biodb/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'biodb'
finding HTML links ... done
BiodbBiocPersistentCache html
BiodbConfig html
BiodbConn html
BiodbConnBase html
BiodbCsvEntry html
BiodbCustomPersistentCache html
BiodbDbInfo html
BiodbDbsInfo html
BiodbEntry html
BiodbEntryField html
BiodbEntryFields html
BiodbFactory html
BiodbHtmlEntry html
BiodbJsonEntry html
BiodbListEntry html
BiodbMain html
BiodbPersistentCache html
BiodbRequest html
BiodbRequestScheduler html
BiodbRequestSchedulerRule html
BiodbSdfEntry html
BiodbSqlBinaryOp html
BiodbSqlExpr html
BiodbSqlField html
BiodbSqlList html
BiodbSqlLogicalOp html
BiodbSqlQuery html
BiodbSqlValue html
BiodbTestMsgAck html
BiodbTxtEntry html
BiodbUrl html
BiodbXmlEntry html
CompCsvFileConn html
CompCsvFileEntry html
CompSqliteConn html
CompSqliteEntry html
CsvFileConn html
ExtConnClass html
ExtCpp html
ExtDefinitions html
ExtDescriptionFile html
ExtEntryClass html
ExtFileGenerator html
ExtGenerator html
ExtGitignore html
ExtLicense html
ExtMakefile html
ExtPackage html
ExtPackageFile html
ExtRbuildignore html
ExtReadme html
ExtTests html
ExtTravisFile html
ExtVignette html
FileTemplate html
MassCsvFileConn html
MassCsvFileEntry html
MassSqliteConn html
MassSqliteEntry html
Progress html
Range html
RequestResult html
SqliteConn html
TestRefEntries html
abstractClass html
abstractMethod html
biodb-package html
checkDeprecatedCacheFolders html
closeMatchPpm html
connNameToClassPrefix html
createBiodbTestInstance html
df2str html
doesRCurlRequestUrlExist html
error html
error0 html
genNewExtPkg html
getBaseUrlContent html
getBaseUrlRequestResult html
getConnClassName html
getConnTypes html
getDefaultCacheDir html
getEntryClassName html
getEntryTypes html
getLicenses html
getLogger html
getPkgName html
getRCurlContent html
getRCurlRequestResult html
getReposName html
getTestOutputDir html
getUrlContent html
getUrlRequestResult html
listTestRefEntries html
loadFileContents html
logDebug html
logDebug0 html
logInfo html
logInfo0 html
logTrace html
logTrace0 html
lst2str html
makeRCurlOptions html
newInst html
prepareFileContents html
runGenericTests html
saveContentsToFiles html
testContext html
testThat html
upgradeExtPkg html
warn html
warn0 html
** 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
install for x64
* installing *source* package 'biodb' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c closeMatchPpm.cpp -o closeMatchPpm.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-100-ms_matching.cpp -o test-100-ms_matching.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test-runner.cpp -o test-runner.o
In file included from C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat.h:1,
from test-runner.cpp:7:
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cout()':
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h:145:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cerr()':
C:/Users/biocbuild/bbs-3.14-bioc/R/library/testthat/include/testthat/testthat.h:152:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o biodb.dll tmp.def RcppExports.o closeMatchPpm.o test-100-ms_matching.o test-runner.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/biodb.buildbin-libdir/biodb/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'biodb' as biodb_1.2.2.zip
* DONE (biodb)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'biodb' successfully unpacked and MD5 sums checked
|
biodb.Rcheck/tests_i386/testthat.Rout
R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)
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(biodb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodb")
biodb.INFO [2022-01-20 16:42:01.810][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:01.810][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 16:42:01.826][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:01.826][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 16:42:01.826][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 16:42:01.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.826][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 16:42:01.857][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 16:42:01.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.872][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 16:42:01.872][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 16:42:01.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.872][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 16:42:01.872][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 16:42:01.872][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 16:42:01.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.888][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 16:42:01.888][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 16:42:01.888][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 16:42:01.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.904][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 16:42:01.904][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 16:42:01.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.904][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 16:42:01.904][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 16:42:01.919][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 16:42:01.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.919][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 16:42:01.919][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 16:42:01.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.919][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[2022-01-20 16:42:01.919][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 16:42:01.935][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 16:42:01.935][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 16:42:01.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.935][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:01.935][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 16:42:01.935][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 16:42:01.935][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 16:42:01.951][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 16:42:01.951][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 16:42:01.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.951][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 16:42:01.951][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 16:42:01.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.966][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 16:42:01.966][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 16:42:01.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.966][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 16:42:01.966][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 16:42:01.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.982][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 16:42:01.982][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:01.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.982][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 16:42:01.982][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 16:42:01.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.997][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:01.997][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 16:42:01.997][self$set] Set key svn.binary.path to "C:\PROGRA~1\TORTOI~1\bin\svn.exe".
biodb.DEBUG[2022-01-20 16:42:01.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:01.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:01.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:01.997][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 16:42:01.997][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 16:42:01.997][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 16:42:02.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.013][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:02.044][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.076][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-20 16:42:02.076][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.076][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:02.076][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.076][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.076][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:02.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.107][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:02.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.107][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.107][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.107][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:02.107][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:02.107][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.107][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.107][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:02.122][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.138][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.138][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:02.154][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.154][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.154][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.154][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.154][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:02.154][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:02.154][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.154][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.154][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:02.154][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.169][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.185][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.185][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.185][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:02.201][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.201][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:02.201][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:02.216][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.232][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:02.232][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:02.232][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:02.247][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:02.247][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:02.247][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:02.247][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:02.247][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.247][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.DEBUG[2022-01-20 16:42:02.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.247][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.DEBUG[2022-01-20 16:42:02.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.326][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.DEBUG[2022-01-20 16:42:02.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:02.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.372][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[2022-01-20 16:42:02.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.388][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[2022-01-20 16:42:02.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:02.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.388][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[2022-01-20 16:42:02.404][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 16:42:02.404][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 16:42:02.404][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 16:42:02.404][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 16:42:02.404][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 16:42:02.419][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 16:42:02.419][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:02.419][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:02.419][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 16:42:02.419][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 16:42:02.435][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 16:42:02.435][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 16:42:02.435][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:02.435][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:02.451][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 16:42:02.451][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 16:42:02.451][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 16:42:02.451][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 16:42:02.451][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 16:42:02.466][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 16:42:02.466][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 16:42:02.466][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 16:42:02.466][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 16:42:02.466][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 16:42:02.482][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 16:42:02.482][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 16:42:02.482][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 16:42:02.482][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 16:42:02.482][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 16:42:02.482][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 16:42:02.497][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 16:42:02.497][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 16:42:02.497][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 16:42:02.497][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 16:42:02.497][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 16:42:02.497][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 16:42:02.513][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 16:42:02.513][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 16:42:02.513][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 16:42:02.513][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 16:42:02.513][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 16:42:02.513][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 16:42:02.513][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 16:42:02.529][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 16:42:02.529][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 16:42:02.529][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 16:42:02.529][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 16:42:02.529][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 16:42:02.529][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 16:42:02.544][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 16:42:02.544][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 16:42:02.544][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 16:42:02.544][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 16:42:02.544][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 16:42:02.544][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 16:42:02.544][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 16:42:02.560][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 16:42:02.560][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 16:42:02.560][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 16:42:02.560][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 16:42:02.560][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 16:42:02.560][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 16:42:02.576][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 16:42:02.576][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 16:42:02.576][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 16:42:02.576][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 16:42:02.576][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 16:42:02.576][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 16:42:02.576][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 16:42:02.591][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 16:42:02.591][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 16:42:02.591][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 16:42:02.591][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 16:42:02.591][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 16:42:02.591][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 16:42:02.591][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 16:42:02.607][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 16:42:02.607][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 16:42:02.607][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 16:42:02.607][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 16:42:02.607][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 16:42:02.607][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 16:42:02.607][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 16:42:02.622][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 16:42:02.638][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-20 16:42:02.638][biodb::testContext]
biodb.INFO [2022-01-20 16:42:02.638][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:02.638][biodb::testContext] Test context - Test abstract declaration.
biodb.INFO [2022-01-20 16:42:02.638][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:02.638][biodb::testContext]
biodb.INFO [2022-01-20 16:42:02.638][biodb::testThat]
biodb.INFO [2022-01-20 16:42:02.638][biodb::testThat] Running test function test.abstractClass.declaration (" An abstract class cannot be instantiated. ").
biodb.INFO [2022-01-20 16:42:02.654][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:02.654][biodb::testThat]
biodb.ERROR[2022-01-20 16:42:02.654][abstractClass] Class BiodbConnBase is abstract and thus cannot be instantiated.
biodb.INFO [2022-01-20 16:42:02.669][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 16:42:02.669][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 16:42:02.669][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:02.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:02.669][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:02.685][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.INFO [2022-01-20 16:42:02.685][biodb::testContext]
biodb.INFO [2022-01-20 16:42:02.685][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:02.685][biodb::testContext] Test context - Testing BiodbUrl.
biodb.INFO [2022-01-20 16:42:02.685][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:02.685][biodb::testContext]
biodb.INFO [2022-01-20 16:42:02.701][biodb::testThat]
biodb.INFO [2022-01-20 16:42:02.701][biodb::testThat] Running test function test_BiodbUrl (" BiodbUrl works fine. ").
biodb.INFO [2022-01-20 16:42:02.701][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:02.701][biodb::testThat]
biodb.INFO [2022-01-20 16:42:02.716][biodb::testThat]
biodb.INFO [2022-01-20 16:42:02.716][biodb::testThat] Running test function test_biodburl_encoding (" BiodbUrl encoding works correctly. ").
biodb.INFO [2022-01-20 16:42:02.716][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:02.732][biodb::testThat]
biodb.INFO [2022-01-20 16:42:02.763][biodb::testThat]
biodb.INFO [2022-01-20 16:42:02.763][biodb::testThat] Running test function test_getRCurlContent (" getRCurlContent() works fine. ").
biodb.INFO [2022-01-20 16:42:02.763][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:02.763][biodb::testThat]
biodb.INFO [2022-01-20 16:42:04.044][biodb::testContext]
biodb.INFO [2022-01-20 16:42:04.044][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:04.044][biodb::testContext] Test context - Testing Range class.
biodb.INFO [2022-01-20 16:42:04.044][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:04.044][biodb::testContext]
biodb.INFO [2022-01-20 16:42:04.044][biodb::testThat]
biodb.INFO [2022-01-20 16:42:04.060][biodb::testThat] Running test function test_range (" Range class works correctly. ").
biodb.INFO [2022-01-20 16:42:04.060][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:04.060][biodb::testThat]
biodb.INFO [2022-01-20 16:42:04.185][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:04.185][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 16:42:04.201][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:04.201][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 16:42:04.201][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 16:42:04.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.216][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 16:42:04.216][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 16:42:04.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.216][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[2022-01-20 16:42:04.216][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 16:42:04.216][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 16:42:04.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.232][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 16:42:04.232][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 16:42:04.232][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 16:42:04.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.232][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[2022-01-20 16:42:04.247][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 16:42:04.247][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 16:42:04.247][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 16:42:04.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.247][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 16:42:04.247][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 16:42:04.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.263][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 16:42:04.279][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 16:42:04.279][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 16:42:04.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.279][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 16:42:04.294][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 16:42:04.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.294][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 16:42:04.294][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 16:42:04.294][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 16:42:04.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.310][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:04.310][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 16:42:04.310][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 16:42:04.310][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 16:42:04.310][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 16:42:04.310][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 16:42:04.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.326][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.DEBUG[2022-01-20 16:42:04.326][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 16:42:04.326][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 16:42:04.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.326][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 16:42:04.326][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 16:42:04.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.341][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 16:42:04.341][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 16:42:04.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.341][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 16:42:04.341][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:04.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.357][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 16:42:04.357][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 16:42:04.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.357][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:04.372][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 16:42:04.372][self$set] Set key svn.binary.path to "C:\PROGRA~1\TORTOI~1\bin\svn.exe".
biodb.DEBUG[2022-01-20 16:42:04.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.372][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[2022-01-20 16:42:04.372][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 16:42:04.372][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 16:42:04.372][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 16:42:04.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.388][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:04.388][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.388][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-20 16:42:04.388][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.388][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:04.388][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 16:42:04.404][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.419][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.419][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.419][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.435][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:04.591][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:04.591][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.591][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.607][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.607][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.622][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.622][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:04.638][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.638][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.638][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.654][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.669][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.669][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.669][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:04.685][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.685][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.685][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:04.701][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.716][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.716][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:04.716][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:04.716][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:04.716][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:04.716][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.716][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:04.716][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:04.716][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:04.716][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:04.716][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.747][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[2022-01-20 16:42:04.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.747][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[2022-01-20 16:42:04.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:04.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:04.826][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 16:42:04.826][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 16:42:04.841][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 16:42:04.857][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 16:42:04.873][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 16:42:04.888][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 16:42:04.904][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 16:42:04.919][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 16:42:04.935][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 16:42:04.951][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 16:42:04.951][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 16:42:04.951][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 16:42:04.951][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 16:42:04.951][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 16:42:04.951][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 16:42:04.951][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 16:42:04.966][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 16:42:04.982][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 16:42:04.982][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 16:42:04.982][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 16:42:04.982][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-20 16:42:04.982][biodb::testContext]
biodb.INFO [2022-01-20 16:42:04.982][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:04.982][biodb::testContext] Test context - Test object printing.
biodb.INFO [2022-01-20 16:42:04.982][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:04.997][biodb::testContext]
biodb.INFO [2022-01-20 16:42:04.997][biodb::testThat]
biodb.INFO [2022-01-20 16:42:04.997][biodb::testThat] Running test function test.BiodbMain.print (" BiodbMain print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:04.997][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:04.997][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.013][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.013][biodb::testThat] Running test function test.BiodbCache.print (" BiodbCache print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:05.013][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:05.013][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.029][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.029][biodb::testThat] Running test function test.BiodbConfig.print (" BiodbConfig print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:05.029][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:05.029][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.029][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.029][biodb::testThat] Running test function test.BiodbFactory.print (" BiodbFactory print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:05.044][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:05.044][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.044][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.044][biodb::testThat] Running test function test.BiodbEntry.print (" BiodbEntry print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:05.044][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:05.044][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:05.060][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:05.060][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-20 16:42:05.076][private$loadEntries] Creating entries from ids [1]: "C1".
biodb.DEBUG[2022-01-20 16:42:05.076][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 16:42:05.076][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-20 16:42:05.076][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:05.076][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:05.076][private$doGetEntryContentFromDb] Entry id: C1
biodb.DEBUG[2022-01-20 16:42:05.091][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-20 16:42:05.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.107][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.154][self$setField] Set field ms.mode to column(s) ms.mode.
biodb.TRACE[2022-01-20 16:42:05.154][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.154][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.154][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.169][self$setField] Set field peak.mztheo to column(s) peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.169][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.169][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.169][self$setField] Set field peak.comp to column(s) peak.comp.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.169][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.169][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.169][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setField] Set field peak.attr to column(s) peak.attr.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.185][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.201][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.247][private$doGetEntryContentFromDb] Content of first entry: accession ms.mode peak.mztheo peak.comp peak.attr formula molecular.mass name
C1 pos 112.07569 P9Z6W410 O [(M+H)-(H2O)-(NH3)]+ J114L6M62O2 146.10553 Blablaine
biodb.DEBUG[2022-01-20 16:42:05.263][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2022-01-20 16:42:05.263][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-20 16:42:05.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:05.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:05.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:05.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:05.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:05.294][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.310][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.341][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.357][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:05.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.482][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:05.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.591][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.607][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.607][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:05.607][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-20 16:42:05.607][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 16:42:05.607][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-20 16:42:05.607][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.607][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.607][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.623][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.638][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.654][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.654][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.669][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.669][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-20 16:42:05.669][private$organizeFieldsByGroups] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.685][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.701][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.701][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.701][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.701][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.comp", "peak.attr", "peak.mz"))"
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.732][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:05.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:05.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:05.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:05.873][self$createEntryFromContent] Accession numbers: C1.
biodb.INFO [2022-01-20 16:42:05.888][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2022-01-20 16:42:05.888][biodb::testThat]
biodb.INFO [2022-01-20 16:42:05.888][biodb::testThat] Running test function test.BiodbConn.print (" BiodbConn print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:05.888][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:05.888][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:05.951][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:05.966][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat] Running test function test.BiodbDbsInfo.print (" BiodbDbsInfo print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat] Running test function test.BiodbEntryFields.print (" BiodbEntryFields print method returns correct information. ").
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.044][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.060][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2022-01-20 16:42:06.060][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.DEBUG[2022-01-20 16:42:06.060][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 16:42:06.060][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.060][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.060][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.INFO [2022-01-20 16:42:06.060][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.060][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.076][biodb::testContext] Test context - Testing mass functions
biodb.INFO [2022-01-20 16:42:06.076][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.076][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.076][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.076][biodb::testThat] Running test function test_convertTolToRange (" Conversion from tolerance to range works correctly. ").
biodb.INFO [2022-01-20 16:42:06.076][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.076][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.091][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.091][biodb::testThat] Running test function test_closeMatchPpm (" closeMatchPpm() works correctly. ").
biodb.INFO [2022-01-20 16:42:06.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.091][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.107][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.107][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.107][biodb::testContext] Test context - Testing biodb functions
biodb.INFO [2022-01-20 16:42:06.107][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.107][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.107][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.123][biodb::testThat] Running test function test_connNameToClassPrefix (" We can convert a connector name into a class prefix. ").
biodb.INFO [2022-01-20 16:42:06.123][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.123][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.123][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.123][biodb::testThat] Running test function test_extractVersion (" We can extract the version number from a template file. ").
biodb.INFO [2022-01-20 16:42:06.123][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.123][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.138][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.138][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.138][biodb::testContext] Test context - Testing miscellaneous functions
biodb.INFO [2022-01-20 16:42:06.138][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.138][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.138][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.138][biodb::testThat] Running test function test_splitVersion (" We can split version string. ").
biodb.INFO [2022-01-20 16:42:06.138][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.138][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.154][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.154][biodb::testThat] Running test function test_compareVersions (" We can compare string versions. ").
biodb.INFO [2022-01-20 16:42:06.154][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.154][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.185][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:06.185][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 16:42:06.185][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:06.185][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 16:42:06.185][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 16:42:06.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.201][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 16:42:06.201][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 16:42:06.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.201][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 16:42:06.201][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 16:42:06.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.201][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 16:42:06.201][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 16:42:06.201][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 16:42:06.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.216][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 16:42:06.216][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 16:42:06.216][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 16:42:06.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.216][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[2022-01-20 16:42:06.216][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 16:42:06.216][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 16:42:06.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.216][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 16:42:06.216][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 16:42:06.216][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 16:42:06.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.232][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[2022-01-20 16:42:06.232][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 16:42:06.232][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 16:42:06.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.232][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 16:42:06.232][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 16:42:06.232][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 16:42:06.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.232][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[2022-01-20 16:42:06.232][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:06.232][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 16:42:06.232][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 16:42:06.248][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 16:42:06.248][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 16:42:06.248][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 16:42:06.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.248][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 16:42:06.248][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 16:42:06.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.248][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 16:42:06.248][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 16:42:06.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.263][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 16:42:06.263][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 16:42:06.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.263][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 16:42:06.263][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:06.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.263][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 16:42:06.263][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 16:42:06.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.279][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:06.279][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 16:42:06.279][self$set] Set key svn.binary.path to "C:\PROGRA~1\TORTOI~1\bin\svn.exe".
biodb.DEBUG[2022-01-20 16:42:06.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.279][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 16:42:06.279][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 16:42:06.279][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 16:42:06.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.279][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:06.279][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.294][self$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[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:06.294][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:06.310][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.310][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 16:42:06.310][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.326][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:06.341][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.341][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:06.341][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.357][self$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[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.357][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.373][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.373][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:06.373][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.373][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.373][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:06.388][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:06.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:06.404][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:06.404][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:06.419][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.466][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[2022-01-20 16:42:06.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.466][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[2022-01-20 16:42:06.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.466][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[2022-01-20 16:42:06.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.498][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 16:42:06.498][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 16:42:06.513][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 16:42:06.529][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 16:42:06.544][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 16:42:06.560][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 16:42:06.576][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 16:42:06.591][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 16:42:06.607][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 16:42:06.623][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 16:42:06.623][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 16:42:06.623][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 16:42:06.623][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 16:42:06.623][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 16:42:06.623][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 16:42:06.623][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 16:42:06.623][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 16:42:06.623][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-20 16:42:06.623][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.638][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.638][biodb::testContext] Test context - Test messages.
biodb.INFO [2022-01-20 16:42:06.638][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:06.638][biodb::testContext]
biodb.INFO [2022-01-20 16:42:06.638][biodb::testThat]
biodb.INFO [2022-01-20 16:42:06.638][biodb::testThat] Running test function test.deprecatedMethods (" Deprecated methods send correct message. ").
biodb.INFO [2022-01-20 16:42:06.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:06.638][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:06.638][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:06.638][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-20 16:42:06.654][private$loadEntries] Creating entries from ids [1]: "C1".
biodb.DEBUG[2022-01-20 16:42:06.654][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 16:42:06.654][conn$getEntryContent] 1 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-20 16:42:06.654][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:06.654][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:06.654][private$doGetEntryContentFromDb] Entry id: C1
biodb.DEBUG[2022-01-20 16:42:06.654][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-20 16:42:06.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:06.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:06.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.654][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.669][self$setField] Set field ms.mode to column(s) ms.mode.
biodb.TRACE[2022-01-20 16:42:06.669][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.669][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.669][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.669][self$setField] Set field peak.mztheo to column(s) peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.669][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.685][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.685][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.685][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.685][self$setField] Set field peak.comp to column(s) peak.comp.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.685][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.685][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.685][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.685][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.685][self$setField] Set field peak.attr to column(s) peak.attr.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.701][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-20 16:42:06.716][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:06.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:06.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.716][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.716][private$doGetEntryContentFromDb] Content of first entry: accession ms.mode peak.mztheo peak.comp peak.attr formula molecular.mass name
C1 pos 112.07569 P9Z6W410 O [(M+H)-(H2O)-(NH3)]+ J114L6M62O2 146.10553 Blablaine
biodb.DEBUG[2022-01-20 16:42:06.732][self$createEntryFromContent] Creating Mass spectra CSV File entries from 1 content(s).
biodb.DEBUG[2022-01-20 16:42:06.732][self$createEntryFromContent] Parsing 1 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-20 16:42:06.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:06.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:06.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:06.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:06.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "ms.mode".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.mztheo".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.comp".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "peak.attr".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:06.748][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.TRACE[2022-01-20 16:42:06.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:06.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:06.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.794][self$getBiodb()$getEntryFields()$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.826][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.826][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:06.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.888][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.966][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:06.966][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-20 16:42:06.966][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 16:42:06.966][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-20 16:42:06.966][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:06.966][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:06.966][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.966][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.966][ef$get] Asked field names are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] Realnames of fields are: ms.mode.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:06.998][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.013][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.013][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.029][private$selectFields] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-20 16:42:07.029][private$organizeFieldsByGroups] Fields [4]: "peak.mztheo, peak.comp, peak.attr, peak.mz"
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.029][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.044][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.044][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.044][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.044][ef$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.044][ef$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.044][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.044][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.044][private$organizeFieldsByGroups] Groups [2]: "character(0), list(peaks = c("peak.mztheo", "peak.comp", "peak.attr", "peak.mz"))"
biodb.TRACE[2022-01-20 16:42:07.044][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.044][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.comp.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.076][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:07.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:07.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:07.185][self$createEntryFromContent] Accession numbers: C1.
biodb.DEBUG[2022-01-20 16:42:07.216][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-20 16:42:07.216][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.216][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:07.232][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-20 16:42:07.232][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-20 16:42:07.232][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.232][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:07.248][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-20 16:42:07.248][self$setPropertyValue] Setting property "urls" to "https://foo/".
biodb.DEBUG[2022-01-20 16:42:07.248][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.248][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.WARN [2022-01-20 16:42:07.263][self$searchForEntries] This database is not searchable by field "name".
biodb.TRACE[2022-01-20 16:42:07.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:07.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:07.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:07.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:07.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:07.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:07.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 16:42:07.279][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2022-01-20 16:42:07.294][biodb::testThat]
biodb.INFO [2022-01-20 16:42:07.294][biodb::testThat] Running test function test.default.messages (" Test what messages are printed by default. ").
biodb.INFO [2022-01-20 16:42:07.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:07.294][biodb::testThat]
biodb.INFO [2022-01-20 16:42:07.326][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 16:42:07.326][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 16:42:07.326][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.326][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 16:42:07.341][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:07.341][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 16:42:07.341][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:07.341][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 16:42:07.341][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.357][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 16:42:07.357][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.357][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 16:42:07.357][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.357][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 16:42:07.357][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 16:42:07.357][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 16:42:07.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.373][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 16:42:07.373][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 16:42:07.373][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.373][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.DEBUG[2022-01-20 16:42:07.373][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 16:42:07.373][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 16:42:07.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.373][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 16:42:07.373][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 16:42:07.373][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 16:42:07.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.388][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[2022-01-20 16:42:07.388][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 16:42:07.388][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.388][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 16:42:07.388][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 16:42:07.388][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.388][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[2022-01-20 16:42:07.388][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:07.404][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 16:42:07.404][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 16:42:07.404][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 16:42:07.404][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 16:42:07.404][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 16:42:07.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.404][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 16:42:07.404][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 16:42:07.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.404][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.DEBUG[2022-01-20 16:42:07.404][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 16:42:07.419][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 16:42:07.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.419][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 16:42:07.419][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 16:42:07.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.419][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 16:42:07.419][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:07.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.419][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 16:42:07.419][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 16:42:07.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.435][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:07.435][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 16:42:07.435][self$set] Set key svn.binary.path to "C:\PROGRA~1\TORTOI~1\bin\svn.exe".
biodb.DEBUG[2022-01-20 16:42:07.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.435][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 16:42:07.435][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 16:42:07.435][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 16:42:07.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.451][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:07.466][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.466][self$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[2022-01-20 16:42:07.466][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:07.482][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.498][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.498][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.498][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:07.513][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.529][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.529][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:07.529][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.529][self$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[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.544][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.560][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.560][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.560][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.560][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 16:42:07.560][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:07.576][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.591][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.591][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.591][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.591][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.607][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.607][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[2022-01-20 16:42:07.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.607][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[2022-01-20 16:42:07.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.607][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[2022-01-20 16:42:07.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.623][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[2022-01-20 16:42:07.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.623][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[2022-01-20 16:42:07.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.623][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[2022-01-20 16:42:07.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.685][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 16:42:07.701][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 16:42:07.716][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 16:42:07.732][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 16:42:07.748][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 16:42:07.763][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 16:42:07.779][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 16:42:07.794][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 16:42:07.810][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 16:42:07.810][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 16:42:07.810][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 16:42:07.810][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 16:42:07.810][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 16:42:07.810][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 16:42:07.810][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-20 16:42:07.810][biodb::testContext]
biodb.INFO [2022-01-20 16:42:07.810][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:07.810][biodb::testContext] Test context - Test config.
biodb.INFO [2022-01-20 16:42:07.826][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:07.826][biodb::testContext]
biodb.INFO [2022-01-20 16:42:07.826][biodb::testThat]
biodb.INFO [2022-01-20 16:42:07.826][biodb::testThat] Running test function test.listKeys (" Keys are listed correctly. ").
biodb.INFO [2022-01-20 16:42:07.826][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:07.826][biodb::testThat]
biodb.INFO [2022-01-20 16:42:07.841][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 16:42:07.841][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 16:42:07.841][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:07.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:07.841][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 16:42:07.841][biodb::testContext]
biodb.INFO [2022-01-20 16:42:07.841][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:07.841][biodb::testContext] Test context - Test persistent cache.
biodb.INFO [2022-01-20 16:42:07.841][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:07.857][biodb::testContext]
biodb.INFO [2022-01-20 16:42:07.857][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:07.857][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 16:42:07.857][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:07.857][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 16:42:07.873][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.873][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[2022-01-20 16:42:07.873][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 16:42:07.873][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.873][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 16:42:07.873][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.873][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[2022-01-20 16:42:07.873][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 16:42:07.873][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 16:42:07.888][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 16:42:07.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.888][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 16:42:07.888][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 16:42:07.888][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.888][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 16:42:07.888][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 16:42:07.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.888][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 16:42:07.904][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 16:42:07.904][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 16:42:07.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.904][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 16:42:07.904][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.904][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 16:42:07.904][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 16:42:07.904][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 16:42:07.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.919][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[2022-01-20 16:42:07.919][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:07.919][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 16:42:07.919][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 16:42:07.919][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 16:42:07.919][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 16:42:07.919][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 16:42:07.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.919][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 16:42:07.919][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 16:42:07.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.919][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[2022-01-20 16:42:07.919][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 16:42:07.935][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 16:42:07.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.935][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 16:42:07.935][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 16:42:07.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.935][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[2022-01-20 16:42:07.935][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 16:42:07.935][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:07.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.935][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 16:42:07.935][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 16:42:07.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.951][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:07.951][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 16:42:07.951][self$set] Set key svn.binary.path to "C:\PROGRA~1\TORTOI~1\bin\svn.exe".
biodb.DEBUG[2022-01-20 16:42:07.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.951][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 16:42:07.951][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 16:42:07.951][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 16:42:07.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:07.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:07.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:07.966][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.966][self$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[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 16:42:07.966][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:07.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:07.982][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.982][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:07.998][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 16:42:07.998][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:08.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:08.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:08.013][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:08.013][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.029][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.029][self$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[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:08.029][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:08.044][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:08.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:08.044][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:08.060][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.060][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:08.060][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:08.076][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:08.076][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:08.076][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:08.091][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.091][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:08.091][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:08.091][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:08.091][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:08.091][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:08.091][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.154][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[2022-01-20 16:42:08.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.154][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[2022-01-20 16:42:08.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.154][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[2022-01-20 16:42:08.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.169][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[2022-01-20 16:42:08.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.169][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[2022-01-20 16:42:08.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.169][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[2022-01-20 16:42:08.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 16:42:08.185][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 16:42:08.201][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 16:42:08.216][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 16:42:08.232][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 16:42:08.248][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 16:42:08.263][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 16:42:08.279][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 16:42:08.294][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 16:42:08.294][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 16:42:08.310][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:08.310][biodb$getConfig()$set] Set key use.cache.for.local.db to TRUE.
biodb.DEBUG[2022-01-20 16:42:08.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:08.310][biodb$getConfig()$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:08.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:08.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 16:42:08.326][biodb$getPersistentCache()$erase] Erasing cache "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb".
biodb.DEBUG[2022-01-20 16:42:14.669][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:14.669][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2022-01-20 16:42:14.669][biodb::testThat]
biodb.INFO [2022-01-20 16:42:14.669][biodb::testThat] Running test function test_cacheFiles (" We can list cache files. ").
biodb.INFO [2022-01-20 16:42:14.685][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:14.685][biodb::testThat]
biodb.INFO [2022-01-20 16:42:14.685][private$initDb] Loading file database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:14.685][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-20 16:42:14.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:14.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:14.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.701][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.701][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-20 16:42:14.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:14.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:14.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.716][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.716][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.716][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:14.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:14.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:14.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.732][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.732][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.732][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.732][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-20 16:42:14.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:14.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.748][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.748][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.748][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.748][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.748][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:14.748][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:14.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.763][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.763][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.763][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.763][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.763][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.763][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-20 16:42:14.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:14.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:14.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2022-01-20 16:42:14.779][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:14.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:14.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.779][self$setField] Set field description to column(s) description.
biodb.TRACE[2022-01-20 16:42:14.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:14.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:14.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.794][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.INFO [2022-01-20 16:42:14.810][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.DEBUG[2022-01-20 16:42:14.810][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8 using pattern ^.*\.tsv$.
biodb.DEBUG[2022-01-20 16:42:14.826][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:14.826][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:14.826][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-20 16:42:14.826][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:14.826][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:14.826][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:14.841][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:14.841][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:14.841][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:14.841][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:14.857][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.TRACE[2022-01-20 16:42:14.904][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1018.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1390.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1456.tsv"
biodb.DEBUG[2022-01-20 16:42:14.904][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:14.935][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:14.935][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:14.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:14.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:14.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:14.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:14.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.951][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:14.966][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.TRACE[2022-01-20 16:42:14.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:14.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:14.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:14.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:14.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:14.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:14.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:14.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:14.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:14.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.029][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:15.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:15.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.076][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.091][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:15.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:15.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:15.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:15.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:15.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:15.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:15.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:15.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:15.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:15.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:15.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:15.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:15.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:15.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:15.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.451][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:15.607][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.DEBUG[2022-01-20 16:42:15.623][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8 using pattern ^.*\.tsv$.
biodb.DEBUG[2022-01-20 16:42:15.638][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8 using pattern ^.*\.tsv$.
biodb.DEBUG[2022-01-20 16:42:15.638][cache$listFiles] Extracting accession number from file names associated with comp.csv.file-0bf304f9c04eab97a915c662d46af8b8 using pattern ^(.*)\.tsv$
biodb.DEBUG[2022-01-20 16:42:15.638][cache$listFiles] files = 1018.tsv, 1390.tsv, 1456.tsv
biodb.INFO [2022-01-20 16:42:15.638][biodb::testThat]
biodb.INFO [2022-01-20 16:42:15.638][biodb::testThat] Running test function test_deleteFilesForWrongCacheId (" We got a warning if we try to delete files for a cache.id that has no associated folder. ").
biodb.INFO [2022-01-20 16:42:15.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:15.638][biodb::testThat]
biodb.WARN [2022-01-20 16:42:15.654][self$getFolderPath] No cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/foo-1234567890abcdef01234" exists for "foo-1234567890abcdef01234".
biodb.INFO [2022-01-20 16:42:15.654][biodb::testThat]
biodb.INFO [2022-01-20 16:42:15.654][biodb::testThat] Running test function test_filesExistForConn (" We detect if cache files exist for a connector ").
biodb.INFO [2022-01-20 16:42:15.654][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:15.654][biodb::testThat]
biodb.INFO [2022-01-20 16:42:15.654][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:15.669][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:15.669][biodb::testThat]
biodb.INFO [2022-01-20 16:42:15.669][biodb::testThat] Running test function test_noFilesExist (" No cache files exist for unknown cache ID. ").
biodb.INFO [2022-01-20 16:42:15.669][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:15.669][biodb::testThat]
biodb.INFO [2022-01-20 16:42:15.669][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/foo-1234567890abcdef01234" for "foo-1234567890abcdef01234".
biodb.INFO [2022-01-20 16:42:15.685][biodb::testThat]
biodb.INFO [2022-01-20 16:42:15.685][biodb::testThat] Running test function test_usedCacheIds (" We can a list of used cache IDs ").
biodb.INFO [2022-01-20 16:42:15.685][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:15.685][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:15.716][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:15.763][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:15.779][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-20 16:42:15.779][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:15.794][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:15.794][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:15.794][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:15.794][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:15.794][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:15.794][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:15.794][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.TRACE[2022-01-20 16:42:15.826][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1018.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1390.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1456.tsv"
biodb.DEBUG[2022-01-20 16:42:15.826][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:15.873][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:15.873][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:15.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:15.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:15.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:15.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:15.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:15.998][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:16.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:16.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:16.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:16.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:16.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:16.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:16.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:16.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:16.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:16.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:16.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:16.419][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-20 16:42:16.435][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:16.435][biodb::testThat]
biodb.INFO [2022-01-20 16:42:16.435][biodb::testThat] Running test function test_deleteAllFiles (" We can delete all cache files for a connector ").
biodb.INFO [2022-01-20 16:42:16.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:16.435][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:16.451][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:16.451][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:16.451][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.INFO [2022-01-20 16:42:16.451][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.TRACE[2022-01-20 16:42:16.451][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:16.451][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:16.451][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:16.451][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:16.451][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:16.466][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:16.466][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:16.466][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.TRACE[2022-01-20 16:42:16.482][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1018.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1390.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1456.tsv"
biodb.DEBUG[2022-01-20 16:42:16.482][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:16.498][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:16.498][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:16.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:16.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:16.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:16.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:16.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.560][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:16.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:16.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:16.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:16.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:16.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:16.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:16.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:16.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:16.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:16.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:16.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:17.013][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-20 16:42:17.013][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:17.013][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.DEBUG[2022-01-20 16:42:17.013][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:17.013][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:17.029][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-20 16:42:17.029][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:17.029][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:17.029][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:17.029][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:17.029][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:17.029][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:17.029][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:17.044][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.TRACE[2022-01-20 16:42:17.044][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1018.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1390.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8/1456.tsv"
biodb.DEBUG[2022-01-20 16:42:17.060][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:17.060][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:17.060][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:17.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:17.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:17.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:17.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:17.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:17.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.154][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.169][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.201][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:17.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:17.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.201][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:17.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:17.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.216][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:17.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:17.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.232][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:17.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:17.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.248][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.263][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:17.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:17.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:17.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.419][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:17.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:17.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:17.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:17.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:17.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.560][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:17.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:17.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:17.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:17.654][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-20 16:42:17.669][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:17.669][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:17.669][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2022-01-20 16:42:17.685][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.DEBUG[2022-01-20 16:42:17.685][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 16:42:17.685][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.685][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.685][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.INFO [2022-01-20 16:42:17.685][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:17.701][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 16:42:17.701][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:17.701][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 16:42:17.701][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 16:42:17.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.716][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 16:42:17.716][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 16:42:17.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.716][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 16:42:17.716][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 16:42:17.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.732][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 16:42:17.732][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 16:42:17.732][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 16:42:17.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.732][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 16:42:17.732][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 16:42:17.732][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 16:42:17.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.732][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 16:42:17.748][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 16:42:17.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.748][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 16:42:17.748][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 16:42:17.748][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 16:42:17.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.748][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 16:42:17.748][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 16:42:17.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.763][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 16:42:17.763][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 16:42:17.763][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 16:42:17.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.763][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:17.763][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 16:42:17.763][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 16:42:17.763][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 16:42:17.763][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 16:42:17.763][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 16:42:17.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.779][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 16:42:17.779][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 16:42:17.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.779][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 16:42:17.779][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 16:42:17.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.779][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 16:42:17.779][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 16:42:17.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.779][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 16:42:17.794][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:17.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.794][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 16:42:17.794][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 16:42:17.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.794][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:17.794][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 16:42:17.794][self$set] Set key svn.binary.path to "C:\PROGRA~1\TORTOI~1\bin\svn.exe".
biodb.DEBUG[2022-01-20 16:42:17.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.810][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 16:42:17.810][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 16:42:17.810][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 16:42:17.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.810][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:17.841][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.857][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.857][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:17.873][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.873][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:17.873][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.888][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:17.904][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.904][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.904][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:17.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:17.935][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.935][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.935][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.951][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:17.951][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:17.966][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:17.966][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:17.966][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.966][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:17.966][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:17.966][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:17.966][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:17.966][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:17.966][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:17.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.013][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[2022-01-20 16:42:18.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.013][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[2022-01-20 16:42:18.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.013][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[2022-01-20 16:42:18.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:18.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:18.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:18.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.044][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[2022-01-20 16:42:18.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.044][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[2022-01-20 16:42:18.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.044][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[2022-01-20 16:42:18.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:18.060][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 16:42:18.076][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 16:42:18.091][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 16:42:18.107][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 16:42:18.123][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 16:42:18.138][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 16:42:18.154][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 16:42:18.169][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 16:42:18.185][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 16:42:18.185][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 16:42:18.185][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 16:42:18.185][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 16:42:18.185][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 16:42:18.185][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 16:42:18.185][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:18.185][biodb$getConfig()$set] Set key use.cache.for.local.db to TRUE.
biodb.DEBUG[2022-01-20 16:42:18.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:18.201][biodb$getConfig()$set] Set key persistent.cache.impl to "bioc".
biodb.DEBUG[2022-01-20 16:42:18.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:18.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:18.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:18.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:18.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 16:42:18.201][biodb$getPersistentCache()$erase] Erasing cache "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb".
biodb.DEBUG[2022-01-20 16:42:18.216][super$initialize] Initialize connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:18.216][biodb$getFactory()$createConn] Creating new connector comp.csv.file for database class comp.csv.file , with base URL "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.INFO [2022-01-20 16:42:18.216][biodb::testThat]
biodb.INFO [2022-01-20 16:42:18.216][biodb::testThat] Running test function test_cacheFiles (" We can list cache files. ").
biodb.INFO [2022-01-20 16:42:18.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:18.216][biodb::testThat]
biodb.INFO [2022-01-20 16:42:18.232][private$initDb] Loading file database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:18.232][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-20 16:42:18.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:18.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:18.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.248][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.248][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.248][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.248][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:18.248][self$setField] Set field monoisotopic.mass to column(s) monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setField] Set field molecular.mass to column(s) molecular.mass.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setField] Set field kegg.compound.id to column(s) kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:18.263][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setField] Set field name to column(s) name.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setField] Set field smiles to column(s) smiles.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:18.279][self$setField] Set field description to column(s) description.
biodb.TRACE[2022-01-20 16:42:18.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:18.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:18.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:18.294][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:18.310][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:18.310][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:18.310][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-20 16:42:18.310][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:18.310][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:18.310][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:18.310][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:18.310][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:18.310][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:18.310][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:18.326][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.INFO [2022-01-20 16:42:18.326][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.DEBUG[2022-01-20 16:42:19.138][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:19.154][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:19.154][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:19.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:19.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:19.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:19.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:19.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "kegg.compound.id".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "name".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "smiles".
biodb.DEBUG[2022-01-20 16:42:19.169][self$setPropertyValue] Setting property "parsing.expr" to "description".
biodb.TRACE[2022-01-20 16:42:19.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:19.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:19.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:19.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:19.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:19.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:19.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:19.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:19.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:19.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:19.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:19.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:19.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:19.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:19.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:19.669][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.DEBUG[2022-01-20 16:42:20.076][cache$listFiles] Extracting accession number from file names associated with comp.csv.file-0bf304f9c04eab97a915c662d46af8b8 using pattern ^(.*)\.tsv$
biodb.DEBUG[2022-01-20 16:42:20.076][cache$listFiles] files = 1018.tsv, 1390.tsv, 1456.tsv
biodb.INFO [2022-01-20 16:42:20.076][biodb::testThat]
biodb.INFO [2022-01-20 16:42:20.076][biodb::testThat] Running test function test_deleteFilesForWrongCacheId (" We got a warning if we try to delete files for a cache.id that has no associated folder. ").
biodb.INFO [2022-01-20 16:42:20.076][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:20.091][biodb::testThat]
biodb.WARN [2022-01-20 16:42:20.091][self$getFolderPath] No cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/foo-1234567890abcdef01234" exists for "foo-1234567890abcdef01234".
biodb.INFO [2022-01-20 16:42:20.091][biodb::testThat]
biodb.INFO [2022-01-20 16:42:20.091][biodb::testThat] Running test function test_filesExistForConn (" We detect if cache files exist for a connector ").
biodb.INFO [2022-01-20 16:42:20.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:20.091][biodb::testThat]
biodb.INFO [2022-01-20 16:42:20.279][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat]
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat] Running test function test_noFilesExist (" No cache files exist for unknown cache ID. ").
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat]
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat]
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat] Running test function test_usedCacheIds (" We can a list of used cache IDs ").
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:20.294][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:20.310][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:20.310][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:20.310][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-20 16:42:20.310][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:20.310][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:20.310][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:20.310][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:20.310][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:20.310][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:20.310][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:20.326][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.INFO [2022-01-20 16:42:20.326][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.DEBUG[2022-01-20 16:42:21.029][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:21.044][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:21.044][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:21.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:21.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:21.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:21.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:21.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:21.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:21.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.138][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:21.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:21.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:21.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:21.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:21.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.201][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:21.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:21.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:21.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:21.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:21.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:21.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:21.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:21.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:21.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:21.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:21.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:21.529][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-20 16:42:21.529][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:21.544][biodb::testThat]
biodb.INFO [2022-01-20 16:42:21.544][biodb::testThat] Running test function test_deleteAllFiles (" We can delete all cache files for a connector ").
biodb.INFO [2022-01-20 16:42:21.544][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:21.544][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:21.544][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:21.544][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:21.544][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-20 16:42:21.544][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:21.544][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:21.544][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:21.544][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:21.560][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:21.560][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:21.560][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:21.560][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.INFO [2022-01-20 16:42:21.560][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.DEBUG[2022-01-20 16:42:22.341][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:22.357][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:22.357][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:22.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:22.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:22.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:22.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:22.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:22.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:22.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:22.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:22.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:22.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:22.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:22.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.544][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:22.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:22.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:22.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:22.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:22.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:22.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:22.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:22.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:22.794][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-20 16:42:22.966][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.DEBUG[2022-01-20 16:42:22.966][private$loadEntries] Creating entries from ids [3]: "1018, 1390, 1456".
biodb.DEBUG[2022-01-20 16:42:22.966][conn$getEntryContent] Get Compound CSV File entry content(s) for 3 id(s)...
biodb.TRACE[2022-01-20 16:42:22.966][cch$loadFileContent] Trying to load 3 files from cache: [3]: "1018, 1390, 1456".
biodb.TRACE[2022-01-20 16:42:22.966][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2022-01-20 16:42:22.966][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 16:42:22.966][conn$getEntryContent] 0 Compound CSV File entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 16:42:22.966][conn$getEntryContent] 3 entry content(s) need to be fetched from Compound CSV File database "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/extdata/chebi_extract.tsv".
biodb.DEBUG[2022-01-20 16:42:22.966][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:22.966][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:22.966][private$doGetEntryContentFromDb] Entry id: 1018, 1390, 1456
biodb.DEBUG[2022-01-20 16:42:22.982][private$doGetEntryContentFromDb] Content of first entry: accession formula monoisotopic.mass molecular.mass kegg.compound.id name smiles description
1018 C2H8AsNO3 168.97201 169.012 C07279 2-Aminoethylarsonate NCC[As](O)(O)=O
biodb.INFO [2022-01-20 16:42:22.982][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8" for "comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.DEBUG[2022-01-20 16:42:23.623][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 16:42:23.638][self$createEntryFromContent] Creating Compound CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:23.638][self$createEntryFromContent] Parsing 3 Compound CSV File entries.
biodb.DEBUG[2022-01-20 16:42:23.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:23.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:23.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:23.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:23.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:23.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:23.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:23.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:23.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:23.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:23.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:23.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:23.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:23.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:23.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:23.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:23.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:23.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 16:42:23.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:23.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 16:42:23.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.csv.file.id.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:24.076][self$createEntryFromContent] Accession numbers: 1018, 1390, 1456.
biodb.INFO [2022-01-20 16:42:24.232][cache$deleteAllFiles] Erasing all files in "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/comp.csv.file-0bf304f9c04eab97a915c662d46af8b8".
biodb.INFO [2022-01-20 16:42:24.248][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2022-01-20 16:42:24.248][self$deleteConn] Connector "comp.csv.file" deleted.
biodb.DEBUG[2022-01-20 16:42:24.248][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 16:42:24.248][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.248][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 16:42:24.263][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 16:42:24.263][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 16:42:24.263][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:24.263][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 16:42:24.263][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 16:42:24.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.279][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 16:42:24.279][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 16:42:24.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.279][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 16:42:24.279][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 16:42:24.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.279][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 16:42:24.279][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 16:42:24.279][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 16:42:24.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.294][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 16:42:24.294][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 16:42:24.294][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 16:42:24.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.294][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 16:42:24.294][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 16:42:24.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.294][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 16:42:24.294][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 16:42:24.294][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 16:42:24.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.310][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 16:42:24.310][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 16:42:24.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.310][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 16:42:24.310][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 16:42:24.310][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 16:42:24.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.310][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:24.310][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 16:42:24.310][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 16:42:24.326][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 16:42:24.326][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 16:42:24.326][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 16:42:24.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.326][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 16:42:24.326][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 16:42:24.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.326][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.DEBUG[2022-01-20 16:42:24.326][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 16:42:24.326][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 16:42:24.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.341][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 16:42:24.341][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 16:42:24.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.341][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 16:42:24.341][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 16:42:24.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.341][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 16:42:24.341][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 16:42:24.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.341][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 16:42:24.357][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 16:42:24.357][self$set] Set key svn.binary.path to "C:\PROGRA~1\TORTOI~1\bin\svn.exe".
biodb.DEBUG[2022-01-20 16:42:24.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.357][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 16:42:24.357][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 16:42:24.357][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 16:42:24.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.357][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.388][self$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[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:24.388][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.404][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:24.419][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.419][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.419][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.435][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.435][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.451][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:24.451][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.451][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.451][self$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[2022-01-20 16:42:24.451][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:24.451][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.466][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:24.466][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.482][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:24.482][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.482][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.482][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 16:42:24.498][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 16:42:24.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 16:42:24.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 16:42:24.513][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.513][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 16:42:24.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 16:42:24.513][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 16:42:24.513][self$setPropertyValue]
biodb.DEBUG[2022-01-20 16:42:24.513][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 16:42:24.513][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.544][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.DEBUG[2022-01-20 16:42:24.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.544][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.DEBUG[2022-01-20 16:42:24.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.544][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.DEBUG[2022-01-20 16:42:24.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.591][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 16:42:24.591][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 16:42:24.591][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 16:42:24.607][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 16:42:24.623][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 16:42:24.638][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 16:42:24.654][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 16:42:24.669][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 16:42:24.685][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 16:42:24.701][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 16:42:24.716][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 16:42:24.716][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 16:42:24.716][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 16:42:24.716][initialize] This is biodb version 1.2.2.
biodb.INFO [2022-01-20 16:42:24.716][biodb::testContext]
biodb.INFO [2022-01-20 16:42:24.716][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:24.716][biodb::testContext] Test context - Test BiodbMain instance.
biodb.INFO [2022-01-20 16:42:24.716][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 16:42:24.716][biodb::testContext]
biodb.INFO [2022-01-20 16:42:24.716][biodb::testThat]
biodb.INFO [2022-01-20 16:42:24.716][biodb::testThat] Running test function test.convertEntryIdFieldToDbClass (" convertEntryIdFieldToDbClass() works correctly. ").
biodb.INFO [2022-01-20 16:42:24.716][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:24.732][biodb::testThat]
biodb.INFO [2022-01-20 16:42:24.732][biodb::testThat]
biodb.INFO [2022-01-20 16:42:24.732][biodb::testThat] Running test function test.collapseRows (" collapseRows() works correctly. ").
biodb.INFO [2022-01-20 16:42:24.732][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:24.748][biodb::testThat]
biodb.INFO [2022-01-20 16:42:24.794][biodb::testThat]
biodb.INFO [2022-01-20 16:42:24.794][biodb::testThat] Running test function test.entriesToDataframe (" entriesToDataframe() works correctly. ").
biodb.INFO [2022-01-20 16:42:24.794][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:24.794][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:24.794][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:24.794][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-20 16:42:24.810][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:24.810][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:24.810][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:24.810][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:24.810][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:24.810][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2022-01-20 16:42:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:24.826][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:24.826][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:24.826][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-20 16:42:24.826][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2022-01-20 16:42:24.826][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2022-01-20 16:42:24.826][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-20 16:42:24.826][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:24.826][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:24.826][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2022-01-20 16:42:24.841][private$doGetEntryContentFromDb] Content of first entry: accession formula msprecmz
A1 C3H10N2 80
biodb.DEBUG[2022-01-20 16:42:24.841][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:24.841][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-20 16:42:24.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:24.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:24.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:24.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:24.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:24.857][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2022-01-20 16:42:24.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:24.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:24.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:24.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:24.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:24.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:24.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.982][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:24.982][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-20 16:42:24.982][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 16:42:24.982][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.982][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.998][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:24.998][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.998][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.998][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:24.998][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:24.998][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-20 16:42:24.998][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:24.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:25.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.044][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.TRACE[2022-01-20 16:42:25.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.169][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:25.169][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-20 16:42:25.169][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.169][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.169][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.185][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:25.185][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:25.185][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-20 16:42:25.185][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:25.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.232][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.TRACE[2022-01-20 16:42:25.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.326][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:25.341][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-20 16:42:25.341][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.341][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.341][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.357][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:25.357][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:25.357][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-20 16:42:25.357][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:25.435][self$createEntryFromContent] Accession numbers: A1, A2, A3.
biodb.DEBUG[2022-01-20 16:42:25.466][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 16:42:25.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:25.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.529][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.529][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.529][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.529][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.529][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.529][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.529][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.529][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.529][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.529][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.529][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.529][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.544][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.544][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.544][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.544][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.544][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.544][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.560][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.560][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.576][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C3H10N2].
biodb.DEBUG[2022-01-20 16:42:25.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.576][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.591][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.591][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.591][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.591][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.591][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.591][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.591][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.607][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.607][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.607][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.607][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.623][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H12O6].
biodb.DEBUG[2022-01-20 16:42:25.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.623][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.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.638][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.638][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.638][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.638][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.638][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.638][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.638][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.654][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.654][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.654][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.654][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.654][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.654][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-20 16:42:25.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.669][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.669][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H8O7].
biodb.DEBUG[2022-01-20 16:42:25.669][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 16:42:25.669][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-20 16:42:25.669][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 16:42:25.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:25.701][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.701][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.716][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.716][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.716][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.716][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.716][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.716][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.732][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.732][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.732][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.732][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.732][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.732][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.732][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.748][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C3H10N2].
biodb.DEBUG[2022-01-20 16:42:25.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.763][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.763][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.763][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.763][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.763][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.763][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.763][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.763][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.763][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.763][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.763][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.763][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.779][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.779][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.779][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.779][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.779][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.779][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.779][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.779][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-20 16:42:25.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.795][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H12O6].
biodb.DEBUG[2022-01-20 16:42:25.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.795][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[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.810][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.810][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.810][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.810][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.810][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.810][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.810][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.810][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.810][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.810][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.810][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.826][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.826][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.826][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.826][private$selectFields] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.826][private$organizeFieldsByGroups] Fields [1]: "formula"
biodb.TRACE[2022-01-20 16:42:25.826][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.826][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.826][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.826][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.826][private$organizeFieldsByGroups] Groups [2]: "formula, list()"
biodb.TRACE[2022-01-20 16:42:25.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.841][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [formula] [C6H8O7].
biodb.DEBUG[2022-01-20 16:42:25.841][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 16:42:25.841][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-20 16:42:25.841][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 16:42:25.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.873][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.873][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.873][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.873][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.873][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.888][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.904][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.904][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.904][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.904][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2022-01-20 16:42:25.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A1, C3H10N2].
biodb.DEBUG[2022-01-20 16:42:25.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:25.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:25.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:25.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:25.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.966][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.966][private$selectFields]
biodb.TRACE[2022-01-20 16:42:25.966][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:25.966][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:25.966][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.966][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.982][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.982][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.982][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:25.998][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:25.998][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.998][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.998][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.029][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A2, C6H12O6].
biodb.DEBUG[2022-01-20 16:42:26.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:26.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:26.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:26.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:26.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:26.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.044][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:26.044][private$selectFields]
biodb.TRACE[2022-01-20 16:42:26.044][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:26.044][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:26.044][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.060][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.076][private$selectFields] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:26.076][private$organizeFieldsByGroups] Fields [2]: "accession, formula"
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.076][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.076][private$organizeFieldsByGroups] Groups [2]: "c("accession", "formula"), list()"
biodb.TRACE[2022-01-20 16:42:26.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.107][private$entriesToListOfDataframes] Entry converted to data frame: [1, 2]: [accession, formula] [A3, C6H8O7].
biodb.DEBUG[2022-01-20 16:42:26.107][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 16:42:26.107][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2022-01-20 16:42:26.107][biodb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 16:42:26.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:26.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:26.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:26.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:26.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.123][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.123][private$selectFields]
biodb.TRACE[2022-01-20 16:42:26.123][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:26.123][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:26.123][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.123][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.138][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.138][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.138][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.138][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.138][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.138][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.138][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.138][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.138][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.138][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2022-01-20 16:42:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.154][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [80].
biodb.DEBUG[2022-01-20 16:42:26.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:26.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:26.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:26.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:26.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.169][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.169][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.169][private$selectFields]
biodb.TRACE[2022-01-20 16:42:26.169][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:26.169][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:26.169][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.169][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.169][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.169][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.169][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.169][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.169][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.185][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.185][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.185][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.201][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [90].
biodb.DEBUG[2022-01-20 16:42:26.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:26.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:26.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:26.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:26.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.201][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.201][private$selectFields]
biodb.TRACE[2022-01-20 16:42:26.216][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 16:42:26.216][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 16:42:26.216][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.216][private$selectFields] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.216][private$organizeFieldsByGroups] Fields [1]: "msprecmz"
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.216][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.216][private$organizeFieldsByGroups] Groups [2]: "msprecmz, list()"
biodb.TRACE[2022-01-20 16:42:26.216][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.232][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [msprecmz] [100;110].
biodb.DEBUG[2022-01-20 16:42:26.232][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 16:42:26.232][biodb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2022-01-20 16:42:26.232][biodb$getFactory()$deleteConn] Connector "mass.csv.file" deleted.
biodb.INFO [2022-01-20 16:42:26.248][biodb::testThat]
biodb.INFO [2022-01-20 16:42:26.248][biodb::testThat] Running test function test.entriesToDataframe.listOfListInput (" entriesToDataframe() handles list of list in input. ").
biodb.INFO [2022-01-20 16:42:26.248][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 16:42:26.248][biodb::testThat]
biodb.DEBUG[2022-01-20 16:42:26.248][super$initialize] Initialize connector mass.csv.file.
biodb.DEBUG[2022-01-20 16:42:26.248][biodb$getFactory()$createConn] Creating new connector mass.csv.file for database class mass.csv.file .
biodb.DEBUG[2022-01-20 16:42:26.248][self$setField] Set field accession to column(s) accession.
biodb.TRACE[2022-01-20 16:42:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:26.263][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:26.263][self$setField] Set field formula to column(s) formula.
biodb.TRACE[2022-01-20 16:42:26.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:26.263][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:26.263][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:26.294][self$setField] Set field msprecmz to column(s) msprecmz.
biodb.TRACE[2022-01-20 16:42:26.294][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:26.294][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:26.294][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:26.294][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-20 16:42:26.294][private$loadEntries] Creating entries from ids [3]: "A1, A2, A3".
biodb.DEBUG[2022-01-20 16:42:26.294][conn$getEntryContent] Get Mass spectra CSV File entry content(s) for 3 id(s)...
biodb.DEBUG[2022-01-20 16:42:26.294][conn$getEntryContent] 3 entry content(s) need to be fetched from Mass spectra CSV File database "NA".
biodb.DEBUG[2022-01-20 16:42:26.294][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 16:42:26.294][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 16:42:26.294][private$doGetEntryContentFromDb] Entry id: A1, A2, A3
biodb.DEBUG[2022-01-20 16:42:26.310][private$doGetEntryContentFromDb] Content of first entry: accession formula msprecmz
A1 C3H10N2 80
biodb.DEBUG[2022-01-20 16:42:26.310][self$createEntryFromContent] Creating Mass spectra CSV File entries from 3 content(s).
biodb.DEBUG[2022-01-20 16:42:26.310][self$createEntryFromContent] Parsing 3 Mass spectra CSV File entries.
biodb.DEBUG[2022-01-20 16:42:26.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:26.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:26.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:26.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:26.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "accession".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "formula".
biodb.DEBUG[2022-01-20 16:42:26.326][self$setPropertyValue] Setting property "parsing.expr" to "msprecmz".
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.341][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.419][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.435][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:26.435][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-20 16:42:26.435][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 16:42:26.435][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-20 16:42:26.435][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.451][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.451][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:26.451][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:26.451][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-20 16:42:26.451][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-20 16:42:26.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:26.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:26.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:26.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:26.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:26.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.529][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Asked field names are: peaks.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peaks.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.607][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 16:42:26.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.607][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:26.607][private$selectFields] Fields type: peak
biodb.TRACE[2022-01-20 16:42:26.607][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 16:42:26.607][private$selectFields] Fields.type is null: FALSE
biodb.TRACE[2022-01-20 16:42:26.607][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.607][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.607][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.607][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.607][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.607][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.623][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.623][ef$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.623][ef$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.623][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.623][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.623][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:26.623][private$selectFields] Fields none
biodb.TRACE[2022-01-20 16:42:26.623][private$organizeFieldsByGroups] Fields none
biodb.TRACE[2022-01-20 16:42:26.623][private$organizeFieldsByGroups] Groups [2]: "character(0), list()"
biodb.TRACE[2022-01-20 16:42:26.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.name.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.col.id.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: mass.csv.file.id.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 16:42:26.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 16:42:26.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 16:42:26.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 16:42:26.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 16:42:26.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] Asked field names are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: msprecmz.
biodb.TRACE[2022-01-20 16:42:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 16:42:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 16:42:26.732 |