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BioC 3.5: BUILD BIN report for hapFabia on veracruz2

This page was generated on 2017-08-16 13:30:31 -0400 (Wed, 16 Aug 2017).

Package 613/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
hapFabia 1.18.0
Sepp Hochreiter
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/hapFabia
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  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: hapFabia
Version: 1.18.0
Command: rm -rf hapFabia.buildbin-libdir && mkdir hapFabia.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh hapFabia_1.18.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R hapFabia.buildbin-libdir
StartedAt: 2017-08-16 10:25:59 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 10:26:28 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 28.9 seconds
RetCode: 0
Status:  OK 
PackageFile: hapFabia_1.18.0.tgz
PackageFileSize: 1.635 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf hapFabia.buildbin-libdir && mkdir hapFabia.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh hapFabia_1.18.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R hapFabia.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=hapFabia.buildbin-libdir hapFabia_1.18.0.tar.gz'
>>>>>>> 

* installing *source* package ‘hapFabia’ ...
rmdir: inst/commandLine/i386: No such file or directory
rmdir: inst/commandLine/x86_64: No such file or directory
rmdir: inst/commandLine/ppc: No such file or directory
rmdir: inst/commandLine/ppc64: No such file or directory
rmdir: inst/commandLine: No such file or directory
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c interfaceR.c -o interfaceR.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c split_sparse_matrixB.c -o split_sparse_matrixB.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c vcftoFABIAB.c -o vcftoFABIAB.o
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o hapFabia.so interfaceR.o split_sparse_matrixB.o vcftoFABIAB.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
clang -c ./commandLine/split_sparse_matrix.c -o ./commandLine/split_sparse_matrix.o -Wall -g -O2 
clang -c split_sparse_matrixB.c -o ./commandLine/split_sparse_matrixB.o -Wall -g -O2 
clang ./commandLine/split_sparse_matrix.o ./commandLine/split_sparse_matrixB.o -o ./commandLine/split_sparse_matrix
mv ./commandLine/split_sparse_matrix ../inst/commandLine/
clang -c ./commandLine/vcftoFABIA.c -o ./commandLine/vcftoFABIA.o -Wall -g -O2 
clang -c vcftoFABIAB.c -o ./commandLine/vcftoFABIAB.o -Wall -g -O2 
clang ./commandLine/vcftoFABIA.o ./commandLine/vcftoFABIAB.o -o ./commandLine/vcftoFABIA
mv ./commandLine/vcftoFABIA ../inst/commandLine/
installing to /Users/biocbuild/bbs-3.5-bioc/meat/hapFabia.buildbin-libdir/hapFabia/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (hapFabia)


>>>>>>> 
>>>>>>> FIXING LINKS FOR hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgcc_s.1.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.5.2.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "hapFabia.buildbin-libdir/hapFabia/libs//hapFabia.so"