SeqArray 1.16.0
Xiuwen Zheng
| Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/SeqArray | | Last Changed Rev: 129126 / Revision: 131943 | | Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |  |
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | ERROR | skipped | skipped | |
| veracruz2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf SeqArray.buildbin-libdir && mkdir SeqArray.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.5/bioc/src/contrib/SeqArray_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --library=SeqArray.buildbin-libdir --merge-multiarch SeqArray_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL SeqArray_1.16.0.zip && rm SeqArray_1.16.0.tar.gz SeqArray_1.16.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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100 1987k 100 1987k 0 0 18.4M 0 --:--:-- --:--:-- --:--:-- 18.6M
install for i386
* installing *source* package 'SeqArray' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c FileMerge.cpp -o FileMerge.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c GetData.cpp -o GetData.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c Index.cpp -o Index.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c LinkSNPRelate.cpp -o LinkSNPRelate.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c Methods.cpp -o Methods.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c R_SeqArray.c -o R_SeqArray.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ReadBySample.cpp -o ReadBySample.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ReadByVariant.cpp -o ReadByVariant.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c SeqArray.cpp -o SeqArray.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c pkg_test.cpp -o pkg_test.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c vectorization.c -o vectorization.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o SeqArray.dll tmp.def ConvGDS2VCF.o ConvToGDS.o ConvVCF2GDS.o FileMerge.o GetData.o Index.o LinkSNPRelate.o Methods.o R_SeqArray.o ReadBySample.o ReadByVariant.o SeqArray.o pkg_test.o vectorization.o -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.5-bioc/meat/SeqArray.buildbin-libdir/SeqArray/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'SeqArray' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c FileMerge.cpp -o FileMerge.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c GetData.cpp -o GetData.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c Index.cpp -o Index.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c LinkSNPRelate.cpp -o LinkSNPRelate.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c Methods.cpp -o Methods.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c R_SeqArray.c -o R_SeqArray.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ReadBySample.cpp -o ReadBySample.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c ReadByVariant.cpp -o ReadByVariant.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c SeqArray.cpp -o SeqArray.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=core2 -c pkg_test.cpp -o pkg_test.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I. -DUSING_R -I"C:/Users/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c vectorization.c -o vectorization.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o SeqArray.dll tmp.def ConvGDS2VCF.o ConvToGDS.o ConvVCF2GDS.o FileMerge.o GetData.o Index.o LinkSNPRelate.o Methods.o R_SeqArray.o ReadBySample.o ReadByVariant.o SeqArray.o pkg_test.o vectorization.o -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.5-bioc/meat/SeqArray.buildbin-libdir/SeqArray/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SeqArray' as SeqArray_1.16.0.zip
* DONE (SeqArray)
* installing to library 'C:/Users/biocbuild/bbs-3.5-bioc/R/library'
package 'SeqArray' successfully unpacked and MD5 sums checked