Jitao David Zhang
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/BioQC |
| Branch: RELEASE_3_11 |
| Last Commit: e9a8893 |
| Last Changed Date: 2020-04-27 14:53:01 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:56:10 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE BioQC PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 179/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| BioQC 1.16.0 Jitao David Zhang
| malbec2 | Linux (Ubuntu 18.04.4 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: BioQC |
| Version: 1.16.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/BioQC_1.16.0.tar.gz && rm -rf BioQC.buildbin-libdir && mkdir BioQC.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BioQC.buildbin-libdir BioQC_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL BioQC_1.16.0.zip && rm BioQC_1.16.0.tar.gz BioQC_1.16.0.zip |
| StartedAt: 2020-10-16 17:20:48 -0400 (Fri, 16 Oct 2020) |
| EndedAt: 2020-10-16 17:22:08 -0400 (Fri, 16 Oct 2020) |
| EllapsedTime: 80.4 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/BioQC_1.16.0.tar.gz && rm -rf BioQC.buildbin-libdir && mkdir BioQC.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BioQC.buildbin-libdir BioQC_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL BioQC_1.16.0.zip && rm BioQC_1.16.0.tar.gz BioQC_1.16.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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install for i386
* installing *source* package 'BioQC' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c gini.c -o gini.o
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c init.c -o init.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c read_gmt.cpp -o read_gmt.o
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c stat_rank.c -o stat_rank.o
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c wmw_test.c -o wmw_test.o
wmw_test.c: In function 'wmw_test_list':
wmw_test.c:105: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
wmw_test.c: In function 'wmw_test':
wmw_test.c:155: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
wmw_test.c: In function 'signed_wmw_test_list':
wmw_test.c:188: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
wmw_test.c: In function 'signed_wmw_test':
wmw_test.c:257: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o BioQC.dll tmp.def gini.o init.o read_gmt.o stat_rank.o wmw_test.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/BioQC.buildbin-libdir/00LOCK-BioQC/00new/BioQC/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'BioQC'
finding HTML links ... done
BaseIndexList-class html
GmtList-class html
GmtList html
IndexList-class html
IndexList html
SignedGenesets-class html
SignedGenesets html
SignedIndexList-class html
SignedIndexList html
absLog10p html
appendGmtList html
as.GmtList html
entropy html
entropyDiversity html
entropySpecificity html
filterBySize html
filterPmat html
gini html
gmtlist2signedGenesets html
gsDesc html
gsGeneCount html
gsGenes html
gsName html
gsNamespace html
hasNamespace html
isValidBaseIndexList html
isValidGmtList html
isValidIndexList html
isValidSignedGenesets html
isValidSignedIndexList html
matchGenes html
offset-set html
offset html
readGmt html
readSignedGmt html
sampleSpecialization html
setDescAsNamespace html
setGsNamespace html
setNamespace html
show-GmtList-method html
show-IndexList-method html
show-SignedGenesets-method html
show-SignedIndexList-method html
simplifyMatrix html
sub-.GmtList html
sub-sub-.GmtList html
uniqGenesetsByNamespace html
valTypes html
wmwTest html
wmwTestInR 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 'BioQC' ...
** libs
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c gini.c -o gini.o
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c init.c -o init.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c read_gmt.cpp -o read_gmt.o
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c stat_rank.c -o stat_rank.o
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG `C:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/Rscript -e 'Rcpp:::CxxFlags()'` -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c wmw_test.c -o wmw_test.o
wmw_test.c: In function 'wmw_test_list':
wmw_test.c:105: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
wmw_test.c: In function 'wmw_test':
wmw_test.c:155: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
wmw_test.c: In function 'signed_wmw_test_list':
wmw_test.c:188: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
wmw_test.c: In function 'signed_wmw_test':
wmw_test.c:257: warning: ignoring #pragma omp parallel [-Wunknown-pragmas]
#pragma omp parallel for
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o BioQC.dll tmp.def gini.o init.o read_gmt.o stat_rank.o wmw_test.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/BioQC.buildbin-libdir/BioQC/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BioQC' as BioQC_1.16.0.zip
* DONE (BioQC)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'BioQC' successfully unpacked and MD5 sums checked