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Package 596/609HostnameOS / ArchBUILDCHECKBUILD BIN
VegaMC 2.2.0
Sandro Morganella
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/VegaMC
Last Changed Rev: 70050 / Revision: 74773
Last Changed Date: 2012-10-01 15:16:24 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK [ OK ]

Summary

Package: VegaMC
Version: 2.2.0
Command: rm -rf VegaMC.buildbin-libdir && mkdir VegaMC.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh VegaMC_2.2.0.tar.gz /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R VegaMC.buildbin-libdir
StartedAt: 2013-03-25 02:11:12 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 02:11:36 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 23.7 seconds
RetCode: 0
Status:  OK 
PackageFile: VegaMC_2.2.0.tgz
PackageFileSize: 1.794 MiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=VegaMC.buildbin-libdir VegaMC_2.2.0.tar.gz'
>>>>>>> 

* installing *source* package 'VegaMC' ...
** libs
*** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c run_vegaMC.c -o run_vegaMC.o
run_vegaMC.c: In function 'read_params':
run_vegaMC.c:618: warning: unused variable 'brkt'
run_vegaMC.c: In function 'load_data':
run_vegaMC.c:498: warning: 'chr' may be used uninitialized in this function
run_vegaMC.c:498: warning: 'position' may be used uninitialized in this function
run_vegaMC.c:481: warning: 'prev_probe' may be used uninitialized in this function
run_vegaMC.c:481: warning: 'first_probe' may be used uninitialized in this function
run_vegaMC.c: In function 'call_VegaMC':
run_vegaMC.c:373: warning: 'prev_seg' may be used uninitialized in this function
run_vegaMC.c:373: warning: 'first_seg' may be used uninitialized in this function
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c sort_data.c -o sort_data.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c vegaMC.c -o vegaMC.o
vegaMC.c: In function 'heap_extract_max':
vegaMC.c:171: warning: 'max.id' may be used uninitialized in this function
vegaMC.c:171: warning: 'max.p' may be used uninitialized in this function
gcc -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o VegaMC.so run_vegaMC.o sort_data.o vegaMC.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/VegaMC.buildbin-libdir/VegaMC/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'VegaMC.Rnw' 
** testing if installed package can be loaded

* DONE (VegaMC)


>>>>>>> 
>>>>>>> FIXING LINKS FOR VegaMC.buildbin-libdir/VegaMC/libs/i386/VegaMC.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgcc_s.1.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/i386/VegaMC.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/i386/VegaMC.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.5.2.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/i386/VegaMC.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/i386/VegaMC.so"


>>>>>>> 
>>>>>>> INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --preclean --no-multiarch --no-test-load --library=VegaMC.buildbin-libdir --libs-only VegaMC_2.2.0.tar.gz'
>>>>>>> 

* installing *source* package 'VegaMC' ...
** libs
*** arch - x86_64
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c run_vegaMC.c -o run_vegaMC.o
run_vegaMC.c: In function 'read_params':
run_vegaMC.c:618: warning: unused variable 'brkt'
run_vegaMC.c: In function 'load_data':
run_vegaMC.c:498: warning: 'chr' may be used uninitialized in this function
run_vegaMC.c:498: warning: 'position' may be used uninitialized in this function
run_vegaMC.c:481: warning: 'prev_probe' may be used uninitialized in this function
run_vegaMC.c:481: warning: 'first_probe' may be used uninitialized in this function
run_vegaMC.c: In function 'call_VegaMC':
run_vegaMC.c:373: warning: 'prev_seg' may be used uninitialized in this function
run_vegaMC.c:373: warning: 'first_seg' may be used uninitialized in this function
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c sort_data.c -o sort_data.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic  -c vegaMC.c -o vegaMC.o
vegaMC.c: In function 'heap_extract_max':
vegaMC.c:171: warning: 'max.id' may be used uninitialized in this function
vegaMC.c:171: warning: 'max.p' may be used uninitialized in this function
gcc -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o VegaMC.so run_vegaMC.o sort_data.o vegaMC.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/VegaMC.buildbin-libdir/VegaMC/libs/x86_64

* DONE (VegaMC)


>>>>>>> 
>>>>>>> FIXING LINKS FOR VegaMC.buildbin-libdir/VegaMC/libs/x86_64/VegaMC.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgcc_s.1.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/x86_64/VegaMC.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/x86_64/VegaMC.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.5.2.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/x86_64/VegaMC.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "VegaMC.buildbin-libdir/VegaMC/libs/x86_64/VegaMC.so"