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BioC 3.2: INSTALL report for SNPRelate on moscato1

This page was generated on 2016-04-23 10:20:39 -0700 (Sat, 23 Apr 2016).

Package 994/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SNPRelate 1.4.2
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/SNPRelate
Last Changed Rev: 112632 / Revision: 116712
Last Changed Date: 2016-01-17 02:57:15 -0800 (Sun, 17 Jan 2016)
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: SNPRelate
Version: 1.4.2
Command: rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/SNPRelate_1.4.2.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=SNPRelate.buildbin-libdir --merge-multiarch SNPRelate_1.4.2.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.4.2.zip && rm SNPRelate_1.4.2.tar.gz SNPRelate_1.4.2.zip
StartedAt: 2016-04-22 17:43:09 -0700 (Fri, 22 Apr 2016)
EndedAt: 2016-04-22 17:46:30 -0700 (Fri, 22 Apr 2016)
EllapsedTime: 200.7 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/SNPRelate_1.4.2.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=SNPRelate.buildbin-libdir --merge-multiarch SNPRelate_1.4.2.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.4.2.zip  && rm SNPRelate_1.4.2.tar.gz SNPRelate_1.4.2.zip
###
##############################################################################
##############################################################################


  % 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 1021k  100 1021k    0     0  71.2M      0 --:--:-- --:--:-- --:--:-- 99.7M

install for i386

* installing *source* package 'SNPRelate' ...
** libs
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -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
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -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_SNPRelate.c -o R_SNPRelate.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c SNPRelate.cpp -o SNPRelate.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c dGenGWAS.cpp -o dGenGWAS.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c dVect.cpp -o dVect.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genFst.cpp -o genFst.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genHWE.cpp -o genHWE.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genIBD.cpp -o genIBD.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genIBS.cpp -o genIBS.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genKING.cpp -o genKING.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genLD.cpp -o genLD.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genPCA.cpp -o genPCA.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genRec.cpp -o genRec.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genSlideWin.cpp -o genSlideWin.o
g++ -m32 -shared -s -static-libgcc -o SNPRelate.dll tmp.def ConvToGDS.o R_SNPRelate.o SNPRelate.o dGenGWAS.o dVect.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genRec.o genSlideWin.o -lgfortran -LD:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lRblas -LD:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lRlapack -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/SNPRelate.buildbin-libdir/SNPRelate/libs/i386
** R
** data
** inst
** preparing 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 'SNPRelate' ...
** libs
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -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
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -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_SNPRelate.c -o R_SNPRelate.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c SNPRelate.cpp -o SNPRelate.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c dGenGWAS.cpp -o dGenGWAS.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c dVect.cpp -o dVect.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genFst.cpp -o genFst.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genHWE.cpp -o genHWE.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genIBD.cpp -o genIBD.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genIBS.cpp -o genIBS.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genKING.cpp -o genKING.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genLD.cpp -o genLD.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genPCA.cpp -o genPCA.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genRec.cpp -o genRec.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -DUSING_R -I.   -I"D:/biocbld/bbs-3.2-bioc/R/library/gdsfmt/include" -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -mtune=core2 -c genSlideWin.cpp -o genSlideWin.o
g++ -m64 -shared -s -static-libgcc -o SNPRelate.dll tmp.def ConvToGDS.o R_SNPRelate.o SNPRelate.o dGenGWAS.o dVect.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genRec.o genSlideWin.o -lgfortran -LD:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lRblas -LD:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lRlapack -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/SNPRelate.buildbin-libdir/SNPRelate/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SNPRelate' as SNPRelate_1.4.2.zip
* DONE (SNPRelate)
* installing to library 'D:/biocbld/bbs-3.2-bioc/R/library'
package 'SNPRelate' successfully unpacked and MD5 sums checked