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BioC 2.14: BUILD BIN report for GraphAlignment on petty

This page was generated on 2014-10-08 08:58:14 -0700 (Wed, 08 Oct 2014).

Package 365/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GraphAlignment 1.28.0
Joern P. Meier
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/GraphAlignment
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK [ OK ]
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: GraphAlignment
Version: 1.28.0
Command: rm -rf GraphAlignment.buildbin-libdir && mkdir GraphAlignment.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GraphAlignment_1.28.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GraphAlignment.buildbin-libdir
StartedAt: 2014-10-08 01:23:26 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 01:23:31 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 5.5 seconds
RetCode: 0
Status:  OK 
PackageFile: GraphAlignment_1.28.0.tgz
PackageFileSize: 394.6 KiB

Command output

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###
### Running command:
###
###   rm -rf GraphAlignment.buildbin-libdir && mkdir GraphAlignment.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GraphAlignment_1.28.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GraphAlignment.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GraphAlignment.buildbin-libdir GraphAlignment_1.28.0.tar.gz'
>>>>>>> 

* installing *source* package ‘GraphAlignment’ ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c GA_alloc.c -o GA_alloc.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c GA_matrix.c -o GA_matrix.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c GA_matrix_R.c -o GA_matrix_R.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c GA_message.c -o GA_message.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c GA_vector.c -o GA_vector.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c GA_vector_R.c -o GA_vector_R.o
GA_vector_R.c: In function ‘GA_clamp_mode_from_R’:
GA_vector_R.c:139: warning: unused variable ‘size’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c GraphAlignment.c -o GraphAlignment.o
GraphAlignment.c: In function ‘GA_encode_directed_graph’:
GraphAlignment.c:138: warning: suggest explicit braces to avoid ambiguous ‘else’
GraphAlignment.c:159: warning: suggest explicit braces to avoid ambiguous ‘else’
GraphAlignment.c: In function ‘GA_directed_mode_from_R’:
GraphAlignment.c:264: warning: unused variable ‘size’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c lap.c -o lap.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o GraphAlignment.so GA_alloc.o GA_matrix.o GA_matrix_R.o GA_message.o GA_vector.o GA_vector_R.o GraphAlignment.o lap.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.14-bioc/meat/GraphAlignment.buildbin-libdir/GraphAlignment/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (GraphAlignment)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgcc_s.1.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgfortran.2.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.5.2.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"