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BUILD BIN report for GeneticsPed on merida2

This page was generated on 2018-10-17 08:47:19 -0400 (Wed, 17 Oct 2018).

Package 582/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GeneticsPed 1.42.0
David Henderson
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/GeneticsPed
Branch: RELEASE_3_7
Last Commit: 89f9fc8
Last Changed Date: 2018-04-30 10:35:07 -0400 (Mon, 30 Apr 2018)
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  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: GeneticsPed
Version: 1.42.0
Command: rm -rf GeneticsPed.buildbin-libdir && mkdir GeneticsPed.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GeneticsPed_1.42.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GeneticsPed.buildbin-libdir
StartedAt: 2018-10-17 01:23:53 -0400 (Wed, 17 Oct 2018)
EndedAt: 2018-10-17 01:24:42 -0400 (Wed, 17 Oct 2018)
EllapsedTime: 48.8 seconds
RetCode: 0
Status:  OK 
PackageFile: GeneticsPed_1.42.0.tgz
PackageFileSize: 653.6 KiB

Command output

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###
### Running command:
###
###   rm -rf GeneticsPed.buildbin-libdir && mkdir GeneticsPed.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GeneticsPed_1.42.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GeneticsPed.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GeneticsPed.buildbin-libdir GeneticsPed_1.42.0.tar.gz'
>>>>>>> 

* installing *source* package ‘GeneticsPed’ ...
** libs
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c ainverse.cc -o ainverse.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c eibd.cc -o eibd.o
gfortran   -fPIC  -g -O2  -c ggmatmult.f -o ggmatmult.o
gfortran   -fPIC  -g -O2  -c gpi.f -o gpi.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c inbreed.cc -o inbreed.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c inverseAdditive.cc -o inverseAdditive.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c meuwissen.cc -o meuwissen.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c pedSort.cc -o pedSort.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c pedtemplate.cc -o pedtemplate.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c register.cc -o register.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c sargolzaei.c -o sargolzaei.o
clang++  -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c sortped.cc -o sortped.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 GeneticsPed.so ainverse.o eibd.o ggmatmult.o gpi.o inbreed.o inverseAdditive.o meuwissen.o pedSort.o pedtemplate.o register.o sargolzaei.o sortped.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/GeneticsPed.buildbin-libdir/GeneticsPed/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 (GeneticsPed)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgcc_s.1.dylib" "GeneticsPed.buildbin-libdir/GeneticsPed/libs//GeneticsPed.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "GeneticsPed.buildbin-libdir/GeneticsPed/libs//GeneticsPed.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.5.2.dylib" "GeneticsPed.buildbin-libdir/GeneticsPed/libs//GeneticsPed.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.dylib" "GeneticsPed.buildbin-libdir/GeneticsPed/libs//GeneticsPed.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "GeneticsPed.buildbin-libdir/GeneticsPed/libs//GeneticsPed.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "GeneticsPed.buildbin-libdir/GeneticsPed/libs//GeneticsPed.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "GeneticsPed.buildbin-libdir/GeneticsPed/libs//GeneticsPed.so"