genoCN 1.8.0
Wei Sun
| Snapshot Date: 2012-09-23 17:01:39 -0700 (Sun, 23 Sep 2012) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/genoCN | | Last Changed Rev: 64678 / Revision: 69725 | | Last Changed Date: 2012-03-30 15:05:02 -0700 (Fri, 30 Mar 2012) |
| lamb2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | OK | [ OK ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=genoCN.buildbin-libdir genoCN_1.8.0.tar.gz'
>>>>>>>
* installing *source* package 'genoCN' ...
** libs
*** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include/i386 -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c tnorm_mle.c -o tnorm_mle.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include/i386 -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c utility.c -o utility.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include/i386 -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c xCNV.c -o xCNV.o
xCNV.c: In function 'emiss':
xCNV.c:317: warning: unused variable 'k'
xCNV.c:317: warning: unused variable 'K'
xCNV.c: In function 'baum_welch':
xCNV.c:787: warning: unused variable 'sd_b_tmp'
xCNV.c:787: warning: unused variable 'mu_b_tmp'
xCNV.c:769: warning: 'pbf' may be used uninitialized in this function
xCNV.c:768: warning: 'nGtp' 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 genoCN.so tnorm_mle.o utility.o xCNV.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.10-bioc/meat/genoCN.buildbin-libdir/genoCN/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
'genoCN.Rnw'
** testing if installed package can be loaded
* DONE (genoCN)
>>>>>>>
>>>>>>> FIXING LINKS FOR genoCN.buildbin-libdir/genoCN/libs/i386/genoCN.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" "genoCN.buildbin-libdir/genoCN/libs/i386/genoCN.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "genoCN.buildbin-libdir/genoCN/libs/i386/genoCN.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" "genoCN.buildbin-libdir/genoCN/libs/i386/genoCN.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "genoCN.buildbin-libdir/genoCN/libs/i386/genoCN.so"
>>>>>>>
>>>>>>> INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --preclean --no-multiarch --no-test-load --library=genoCN.buildbin-libdir --libs-only genoCN_1.8.0.tar.gz'
>>>>>>>
* installing *source* package 'genoCN' ...
** libs
*** arch - x86_64
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include/x86_64 -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c tnorm_mle.c -o tnorm_mle.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include/x86_64 -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c utility.c -o utility.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include -I/Library/Frameworks/R.framework/Versions/2.15/Resources/include/x86_64 -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c xCNV.c -o xCNV.o
xCNV.c: In function 'emiss':
xCNV.c:317: warning: unused variable 'k'
xCNV.c:317: warning: unused variable 'K'
xCNV.c: In function 'baum_welch':
xCNV.c:787: warning: unused variable 'sd_b_tmp'
xCNV.c:787: warning: unused variable 'mu_b_tmp'
xCNV.c:769: warning: 'pbf' may be used uninitialized in this function
xCNV.c:768: warning: 'nGtp' 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 genoCN.so tnorm_mle.o utility.o xCNV.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.10-bioc/meat/genoCN.buildbin-libdir/genoCN/libs/x86_64
* DONE (genoCN)
>>>>>>>
>>>>>>> FIXING LINKS FOR genoCN.buildbin-libdir/genoCN/libs/x86_64/genoCN.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" "genoCN.buildbin-libdir/genoCN/libs/x86_64/genoCN.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "genoCN.buildbin-libdir/genoCN/libs/x86_64/genoCN.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" "genoCN.buildbin-libdir/genoCN/libs/x86_64/genoCN.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "genoCN.buildbin-libdir/genoCN/libs/x86_64/genoCN.so"