Pierrick Roger
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/biodb |
| git_branch: RELEASE_3_13 |
| git_last_commit: 84b7aff |
| git_last_commit_date: 2021-06-09 04:23:12 -0400 (Wed, 09 Jun 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:05:58 -0400 (Fri, 15 Oct 2021).
|
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 178/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodb 1.0.4 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 20.04.2 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: 1.0.4 |
| Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/biodb_1.0.4.tar.gz && rm -rf biodb.buildbin-libdir && mkdir biodb.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=biodb.buildbin-libdir biodb_1.0.4.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL biodb_1.0.4.zip && rm biodb_1.0.4.tar.gz biodb_1.0.4.zip |
| StartedAt: 2021-10-14 08:36:16 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 08:38:37 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 140.7 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/biodb_1.0.4.tar.gz && rm -rf biodb.buildbin-libdir && mkdir biodb.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=biodb.buildbin-libdir biodb_1.0.4.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL biodb_1.0.4.zip && rm biodb_1.0.4.tar.gz biodb_1.0.4.zip
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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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3.13-bioc/R/library/testthat/include/testthat.h:1,
from test-runner.cpp:7:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cout()':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/testthat/include/testthat/testthat.h:145:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
C:/Users/biocbuild/bbs-3.13-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cerr()':
C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-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
BiodbCompounddbConn-class html
BiodbConfig-class html
BiodbConn-class html
BiodbConnBase-class html
BiodbConnObserver-class html
BiodbCsvEntry-class html
BiodbDbInfo-class html
BiodbDbsInfo-class html
BiodbDownloadable-class html
BiodbEditable-class html
BiodbEntry-class html
BiodbEntryField-class html
BiodbEntryFields-class html
BiodbFactory-class html
BiodbHtmlEntry-class html
BiodbJsonEntry-class html
BiodbListEntry-class html
BiodbMain-class html
BiodbMassdbConn-class html
BiodbObserver-class html
BiodbPersistentCache-class html
BiodbRemotedbConn-class html
BiodbRequest html
BiodbRequestScheduler-class html
BiodbRequestSchedulerRule html
BiodbSdfEntry-class html
BiodbSqlBinaryOp html
BiodbSqlExpr html
BiodbSqlField html
BiodbSqlList html
BiodbSqlLogicalOp html
BiodbSqlQuery html
BiodbSqlValue html
BiodbTestMsgAck-class html
BiodbTxtEntry-class html
BiodbUrl html
BiodbWritable-class html
BiodbXmlEntry-class html
CompCsvFileConn-class html
CompCsvFileEntry-class html
CompSqliteConn-class html
CompSqliteEntry-class html
CsvFileConn-class 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-class html
MassCsvFileEntry-class html
MassSqliteConn-class html
MassSqliteEntry-class html
Progress html
Range html
SqliteConn-class html
biodb-package html
closeMatchPpm html
connNameToClassPrefix html
createBiodbTestInstance html
df2str html
error html
error0 html
genNewExtPkg html
getConnClassName html
getConnTypes html
getEntryClassName html
getEntryTypes html
getLicenses html
getLogger html
getPkgName html
getReposName html
getTestOutputDir html
listTestRefEntries html
logDebug html
logDebug0 html
logInfo html
logInfo0 html
logTrace html
logTrace0 html
lst2str html
newInst html
runGenericTests 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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3.13-bioc/R/library/testthat/include/testthat.h:1,
from test-runner.cpp:7:
C:/Users/biocbuild/bbs-3.13-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cout()':
C:/Users/biocbuild/bbs-3.13-bioc/R/library/testthat/include/testthat/testthat.h:145:1: warning: visibility attribute not supported in this configuration; ignored [-Wattributes]
}
^
C:/Users/biocbuild/bbs-3.13-bioc/R/library/testthat/include/testthat/testthat.h: In function 'std::ostream& Catch::cerr()':
C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/biodb.buildbin-libdir/biodb/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'biodb' as biodb_1.0.4.zip
* DONE (biodb)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'biodb' successfully unpacked and MD5 sums checked