DNAcopy 1.40.0
Venkatraman E. Seshan
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/DNAcopy | | Last Changed Rev: 95439 / Revision: 102249 | | Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | OK | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK | [ OK ] |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK |
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### Running command:
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### rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DNAcopy_1.40.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R DNAcopy.buildbin-libdir
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=DNAcopy.buildbin-libdir DNAcopy_1.40.0.tar.gz'
>>>>>>>
* installing *source* package ‘DNAcopy’ ...
** libs
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -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 -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 -c changepoints-wtd.f -o changepoints-wtd.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -c changepoints.f -o changepoints.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -c esegment.f -o esegment.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 flchoose.c -o flchoose.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 fphyper.c -o fphyper.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 fpnorm.c -o fpnorm.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -c getbdry.f -o getbdry.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -c prune.f -o prune.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 rshared.c -o rshared.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -c segmentp.f -o segmentp.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -c smoothCNA.f -o smoothCNA.o
gfortran-4.2 -arch x86_64 -fPIC -g -O2 -Wall -c tailprobs.f -o tailprobs.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/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -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 -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3/x86_64 -L/usr/local/lib/x86_64 -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3 -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.0-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DNAcopy)
>>>>>>>
>>>>>>> FIXING LINKS FOR DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.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" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgfortran.2.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.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" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.dylib" "DNAcopy.buildbin-libdir/DNAcopy/libs//DNAcopy.so"