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BioC 3.1: BUILD BIN report for sigPathway on morelia

This page was generated on 2015-10-09 09:38:20 -0700 (Fri, 09 Oct 2015).

Package 904/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sigPathway 1.36.0
Weil Lai
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/sigPathway
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: sigPathway
Version: 1.36.0
Command: rm -rf sigPathway.buildbin-libdir && mkdir sigPathway.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh sigPathway_1.36.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R sigPathway.buildbin-libdir
StartedAt: 2015-10-09 08:11:42 -0700 (Fri, 09 Oct 2015)
EndedAt: 2015-10-09 08:11:46 -0700 (Fri, 09 Oct 2015)
EllapsedTime: 3.5 seconds
RetCode: 0
Status:  OK 
PackageFile: sigPathway_1.36.0.tgz
PackageFileSize: 664.6 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf sigPathway.buildbin-libdir && mkdir sigPathway.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh sigPathway_1.36.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R sigPathway.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=sigPathway.buildbin-libdir sigPathway_1.36.0.tar.gz'
>>>>>>> 

* installing *source* package ‘sigPathway’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c calc_gene_set_internal.c -o calc_gene_set_internal.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c calc_gene_set_stat.c -o calc_gene_set_stat.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c calc_probe_stat.c -o calc_probe_stat.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c calc_weights.c -o calc_weights.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c matrix_fn.c -o matrix_fn.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c permute.c -o permute.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c shuffle.c -o shuffle.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c sigPathway.c -o sigPathway.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 sigPathway.so calc_gene_set_internal.o calc_gene_set_stat.o calc_probe_stat.o calc_weights.o matrix_fn.o permute.o shuffle.o sigPathway.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/lib/gcc/x86_64-apple-darwin13.0.0/4.8.2 -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.1-bioc/meat/sigPathway.buildbin-libdir/sigPathway/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 (sigPathway)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "sigPathway.buildbin-libdir/sigPathway/libs//sigPathway.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "sigPathway.buildbin-libdir/sigPathway/libs//sigPathway.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "sigPathway.buildbin-libdir/sigPathway/libs//sigPathway.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "sigPathway.buildbin-libdir/sigPathway/libs//sigPathway.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "sigPathway.buildbin-libdir/sigPathway/libs//sigPathway.so"