DNAcopy 1.26.0
Venkatraman E. Seshan
| Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/DNAcopy | | Last Changed Rev: 54800 / Revision: 59457 | | Last Changed Date: 2011-04-13 15:27:35 -0700 (Wed, 13 Apr 2011) |
| lamb1 | Linux (openSUSE 11.3) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| gewurz | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | WARNINGS | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | OK | [ OK ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --library=DNAcopy.buildbin-libdir DNAcopy_1.26.0.tar.gz'
>>>>>>>
* installing *source* package 'DNAcopy' ...
** libs
*** arch - i386
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c cbsWtstats.f -o cbsWtstats.o
cbsWtstats.f: In function 'wtmaxo':
cbsWtstats.f:17: warning: 'tmaxj' may be used uninitialized in this function
cbsWtstats.f:17: warning: 'tmaxi' may be used uninitialized in this function
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c cbststats.f -o cbststats.o
cbststats.f: In function 'tmaxo':
cbststats.f:11: warning: 'sxmxi' may be used uninitialized in this function
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c changepoints-wtd.f -o changepoints-wtd.o
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c changepoints.f -o changepoints.o
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c esegment.f -o esegment.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c flchoose.c -o flchoose.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c fphyper.c -o fphyper.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c fpnorm.c -o fpnorm.o
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c getbdry.f -o getbdry.o
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c prune.f -o prune.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c rshared.c -o rshared.o
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c segmentp.f -o segmentp.o
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c smoothCNA.f -o smoothCNA.o
gfortran-4.2 -arch i386 -fPIC -g -O2 -Wall -pedantic -c tailprobs.f -o tailprobs.o
gcc-4.2 -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o DNAcopy.so cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.8-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs/i386
*** arch - ppc
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c cbsWtstats.f -o cbsWtstats.o
cbsWtstats.f: In function 'wtmaxo':
cbsWtstats.f:17: warning: 'tmaxj' may be used uninitialized in this function
cbsWtstats.f:17: warning: 'tmaxi' may be used uninitialized in this function
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c cbststats.f -o cbststats.o
cbststats.f: In function 'tmaxo':
cbststats.f:11: warning: 'sxmxi' may be used uninitialized in this function
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c changepoints-wtd.f -o changepoints-wtd.o
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c changepoints.f -o changepoints.o
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c esegment.f -o esegment.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c flchoose.c -o flchoose.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c fphyper.c -o fphyper.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c fpnorm.c -o fpnorm.o
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c getbdry.f -o getbdry.o
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c prune.f -o prune.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c rshared.c -o rshared.o
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c segmentp.f -o segmentp.o
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c smoothCNA.f -o smoothCNA.o
gfortran-4.2 -arch ppc -fPIC -g -O2 -Wall -pedantic -c tailprobs.f -o tailprobs.o
gcc-4.2 -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o DNAcopy.so cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -lgfortran -lSystemStubs -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.8-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs/ppc
*** arch - x86_64
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c cbsWtstats.f -o cbsWtstats.o
cbsWtstats.f: In function 'wtmaxo':
cbsWtstats.f:17: warning: 'tmaxj' may be used uninitialized in this function
cbsWtstats.f:17: warning: 'tmaxi' may be used uninitialized in this function
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c cbststats.f -o cbststats.o
cbststats.f: In function 'tmaxo':
cbststats.f:11: warning: 'sxmxi' may be used uninitialized in this function
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c changepoints-wtd.f -o changepoints-wtd.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c changepoints.f -o changepoints.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c esegment.f -o esegment.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c flchoose.c -o flchoose.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c fphyper.c -o fphyper.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c fpnorm.c -o fpnorm.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c getbdry.f -o getbdry.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c prune.f -o prune.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c rshared.c -o rshared.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c segmentp.f -o segmentp.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c smoothCNA.f -o smoothCNA.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -pedantic -c tailprobs.f -o tailprobs.o
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 -o DNAcopy.so cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.8-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs/x86_64
** R
** data
** moving datasets to lazyload DB
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* DONE (DNAcopy)
>>>>>>>
>>>>>>> FIXING LINKS FOR DNAcopy.buildbin-libdir/DNAcopy/libs/i386/DNAcopy.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libgcc_s.1.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/i386/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libgfortran.2.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/i386/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libreadline.5.2.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/i386/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libreadline.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/i386/DNAcopy.so"
>>>>>>>
>>>>>>> FIXING LINKS FOR DNAcopy.buildbin-libdir/DNAcopy/libs/ppc/DNAcopy.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libgcc_s.1.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/ppc/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libgfortran.2.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/ppc/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libreadline.5.2.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/ppc/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libreadline.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/ppc/DNAcopy.so"
>>>>>>>
>>>>>>> FIXING LINKS FOR DNAcopy.buildbin-libdir/DNAcopy/libs/x86_64/DNAcopy.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libgcc_s.1.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/x86_64/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libgfortran.2.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/x86_64/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libreadline.5.2.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/x86_64/DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/libreadline.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs/x86_64/DNAcopy.so"