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BioC 3.5: INSTALL report for SeqArray on malbec2

This page was generated on 2017-08-16 13:14:57 -0400 (Wed, 16 Aug 2017).

Package 1199/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
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 UNNEEDED, same version exists in internal repository
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 UNNEEDED, same version exists in internal repository

Summary

Package: SeqArray
Version: 1.16.0
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD INSTALL SeqArray
StartedAt: 2017-08-15 18:10:04 -0400 (Tue, 15 Aug 2017)
EndedAt: 2017-08-15 18:10:47 -0400 (Tue, 15 Aug 2017)
EllapsedTime: 42.3 seconds
RetCode: 0
Status:  OK 

Command output

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###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD INSTALL SeqArray
###
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* installing to library ‘/home/biocbuild/bbs-3.5-bioc/R/library’
* installing *source* package ‘SeqArray’ ...
** libs
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c ConvToGDS.cpp -o ConvToGDS.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c FileMerge.cpp -o FileMerge.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c GetData.cpp -o GetData.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c Index.cpp -o Index.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c LinkSNPRelate.cpp -o LinkSNPRelate.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c Methods.cpp -o Methods.o
gcc -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c R_SeqArray.c -o R_SeqArray.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c ReadBySample.cpp -o ReadBySample.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c ReadByVariant.cpp -o ReadByVariant.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c SeqArray.cpp -o SeqArray.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c pkg_test.cpp -o pkg_test.o
gcc -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I. -DUSING_R -I"/home/biocbuild/bbs-3.5-bioc/R/library/gdsfmt/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c vectorization.c -o vectorization.o
g++ -shared -L/home/biocbuild/bbs-3.5-bioc/R/lib -L/usr/local/lib -o SeqArray.so 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 -L/home/biocbuild/bbs-3.5-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.5-bioc/R/library/SeqArray/libs
** 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
* DONE (SeqArray)