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BioC 3.3: INSTALL report for SeqArray on windows2.bioconductor.org

This page was generated on 2015-10-27 12:15:14 -0400 (Tue, 27 Oct 2015).

Package 955/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SeqArray 1.11.0
Xiuwen Zheng
Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/SeqArray
Last Changed Rev: 109592 / Revision: 109948
Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015)
linux2.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
windows2.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: SeqArray
Version: 1.11.0
Command: C:\cygwin64\bin\curl.exe -O http://linux2.bioconductor.org/BBS/3.3/bioc/src/contrib/SeqArray_1.11.0.tar.gz && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch SeqArray_1.11.0.tar.gz && rm SeqArray_1.11.0.tar.gz
StartedAt: 2015-10-26 21:13:11 -0400 (Mon, 26 Oct 2015)
EndedAt: 2015-10-26 21:13:50 -0400 (Mon, 26 Oct 2015)
EllapsedTime: 38.4 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin64\bin\curl.exe -O http://linux2.bioconductor.org/BBS/3.3/bioc/src/contrib/SeqArray_1.11.0.tar.gz && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch SeqArray_1.11.0.tar.gz && rm SeqArray_1.11.0.tar.gz
###
##############################################################################
##############################################################################


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install for i386

* installing to library 'c:/biocbld/bbs-3.3-bioc/R/library'
* installing *source* package 'SeqArray' ...
** libs
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c GetData.cpp -o GetData.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c LinkSNPRelate.cpp -o LinkSNPRelate.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c Methods.cpp -o Methods.o
gcc -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_SeqArray.c -o R_SeqArray.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ReadBySample.cpp -o ReadBySample.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ReadByVariant.cpp -o ReadByVariant.o
g++ -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c SeqArray.cpp -o SeqArray.o
g++ -m32 -shared -s -static-libgcc -o SeqArray.dll tmp.def ConvGDS2VCF.o ConvToGDS.o ConvVCF2GDS.o GetData.o LinkSNPRelate.o Methods.o R_SeqArray.o ReadBySample.o ReadByVariant.o SeqArray.o -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -Lc:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lR
installing to c:/biocbld/bbs-3.3-bioc/R/library/SeqArray/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'AnalysisTutorial.Rmd' 
   'SeqArrayTutorial.Rmd' 
** testing if installed package can be loaded

install for x64

* installing to library 'c:/biocbld/bbs-3.3-bioc/R/library'
* installing *source* package 'SeqArray' ...
** libs
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c GetData.cpp -o GetData.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c LinkSNPRelate.cpp -o LinkSNPRelate.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c Methods.cpp -o Methods.o
gcc -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_SeqArray.c -o R_SeqArray.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ReadBySample.cpp -o ReadBySample.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c ReadByVariant.cpp -o ReadByVariant.o
g++ -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I. -DUSING_R   -I"c:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -mtune=core2 -c SeqArray.cpp -o SeqArray.o
g++ -m64 -shared -s -static-libgcc -o SeqArray.dll tmp.def ConvGDS2VCF.o ConvToGDS.o ConvVCF2GDS.o GetData.o LinkSNPRelate.o Methods.o R_SeqArray.o ReadBySample.o ReadByVariant.o SeqArray.o -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -Lc:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lR
installing to c:/biocbld/bbs-3.3-bioc/R/library/SeqArray/libs/x64
** testing if installed package can be loaded
* DONE (SeqArray)