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BioC 3.2: INSTALL report for SeqArray on moscato1

This page was generated on 2016-04-23 10:19:11 -0700 (Sat, 23 Apr 2016).

Package 955/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SeqArray 1.10.6
Xiuwen Zheng
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/SeqArray
Last Changed Rev: 110797 / Revision: 116712
Last Changed Date: 2015-11-22 15:51:09 -0800 (Sun, 22 Nov 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: SeqArray
Version: 1.10.6
Command: rm -rf SeqArray.buildbin-libdir && mkdir SeqArray.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/SeqArray_1.10.6.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=SeqArray.buildbin-libdir --merge-multiarch SeqArray_1.10.6.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL SeqArray_1.10.6.zip && rm SeqArray_1.10.6.tar.gz SeqArray_1.10.6.zip
StartedAt: 2016-04-22 18:35:24 -0700 (Fri, 22 Apr 2016)
EndedAt: 2016-04-22 18:38:29 -0700 (Fri, 22 Apr 2016)
EllapsedTime: 184.9 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   rm -rf SeqArray.buildbin-libdir && mkdir SeqArray.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/SeqArray_1.10.6.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=SeqArray.buildbin-libdir --merge-multiarch SeqArray_1.10.6.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL SeqArray_1.10.6.zip  && rm SeqArray_1.10.6.tar.gz SeqArray_1.10.6.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
100 2575k  100 2575k    0     0  69.1M      0 --:--:-- --:--:-- --:--:-- 78.5M

install for i386

* installing *source* package 'SeqArray' ...
** libs
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c GetData.cpp -o GetData.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c LinkSNPRelate.cpp -o LinkSNPRelate.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c Methods.cpp -o Methods.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_SeqArray.c -o R_SeqArray.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ReadBySample.cpp -o ReadBySample.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ReadByVariant.cpp -o ReadByVariant.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/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/local323/lib/i386 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/SeqArray.buildbin-libdir/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 *source* package 'SeqArray' ...
** libs
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c GetData.cpp -o GetData.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c LinkSNPRelate.cpp -o LinkSNPRelate.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c Methods.cpp -o Methods.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_SeqArray.c -o R_SeqArray.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ReadBySample.cpp -o ReadBySample.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c ReadByVariant.cpp -o ReadByVariant.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I. -DUSING_R   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/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/local323/lib/x64 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/SeqArray.buildbin-libdir/SeqArray/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SeqArray' as SeqArray_1.10.6.zip
* DONE (SeqArray)
* installing to library 'D:/biocbld/bbs-3.2-bioc/R/library'
package 'SeqArray' successfully unpacked and MD5 sums checked