Pierrick Roger
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 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 -0400 (Fri, 10 Dec 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:06:14 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| 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? 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:\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 |
| StartedAt: 2022-04-12 05:16:07 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 05:21:31 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 323.9 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.166/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
10 2665k 10 275k 0 0 667k 0 0:00:03 --:--:-- 0:00:03 666k
43 2665k 43 1150k 0 0 817k 0 0:00:03 0:00:01 0:00:02 817k
100 2665k 100 2665k 0 0 1175k 0 0:00:02 0:00:02 --:--:-- 1176k
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