puma 2.5.0
Richard Pearson , Li Zhang
| Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/puma | | Last Changed Rev: 54810 / Revision: 55359 | | Last Changed Date: 2011-04-13 18:14:51 -0700 (Wed, 13 Apr 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | WARNINGS | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | WARNINGS | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | [ OK ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --library=puma.buildbin-libdir puma_2.5.0.tar.gz'
>>>>>>>
* installing *source* package ‘puma’ ...
** libs
*** arch - i386
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c cregistration.c -o cregistration.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c donlp2.c -o donlp2.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c ipplr_c.c -o ipplr_c.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c multimgmos.c -o multimgmos.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c newx.c -o newx.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c pplr_c.c -o pplr_c.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c pumaclust_c.c -o pumaclust_c.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c pumaclustii_c.c -o pumaclustii_c.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -c user_eval.c -o user_eval.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 puma.so cregistration.o donlp2.o ipplr_c.o multimgmos.o newx.o pplr_c.o pumaclust_c.o pumaclustii_c.o user_eval.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld warning: codegen in _user_eval (offset 0x0000028F) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x00000305) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x00000397) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x0000040F) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x0000049A) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x0000050F) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x000007E2) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x00000805) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x0000096A) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x000009F0) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x00000C69) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x00000D9E) prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval (offset 0x00000DAF) prevents image from loading in dyld shared cache
installing to /Users/biocbuild/bbs-2.9-bioc/meat/puma.buildbin-libdir/puma/libs/i386
*** arch - ppc
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c cregistration.c -o cregistration.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c donlp2.c -o donlp2.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c ipplr_c.c -o ipplr_c.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c multimgmos.c -o multimgmos.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c newx.c -o newx.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c pplr_c.c -o pplr_c.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c pumaclust_c.c -o pumaclust_c.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c pumaclustii_c.c -o pumaclustii_c.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -c user_eval.c -o user_eval.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 puma.so cregistration.o donlp2.o ipplr_c.o multimgmos.o newx.o pplr_c.o pumaclust_c.o pumaclustii_c.o user_eval.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
ld warning: codegen with reference kind 8 in _user_eval prevents image from loading in dyld shared cache
installing to /Users/biocbuild/bbs-2.9-bioc/meat/puma.buildbin-libdir/puma/libs/ppc
*** arch - x86_64
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c cregistration.c -o cregistration.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c donlp2.c -o donlp2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c ipplr_c.c -o ipplr_c.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c multimgmos.c -o multimgmos.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c newx.c -o newx.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c pplr_c.c -o pplr_c.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c pumaclust_c.c -o pumaclust_c.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c pumaclustii_c.c -o pumaclustii_c.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -c user_eval.c -o user_eval.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 puma.so cregistration.o donlp2.o ipplr_c.o multimgmos.o newx.o pplr_c.o pumaclust_c.o pumaclustii_c.o user_eval.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
ld warning: codegen in _user_eval with kind 11 prevents image from loading in dyld shared cache
installing to /Users/biocbuild/bbs-2.9-bioc/meat/puma.buildbin-libdir/puma/libs/x86_64
** R
** data
** demo
** inst
** preparing package for lazy loading
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation("pkgname")'.
by using mclust, invoked on its own or through another package,
you accept the license agreement in the mclust LICENSE file
and at http://www.stat.washington.edu/mclust/license.txt
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
by using mclust, invoked on its own or through another package,
you accept the license agreement in the mclust LICENSE file
and at http://www.stat.washington.edu/mclust/license.txt
* DONE (puma)
>>>>>>>
>>>>>>> FIXING LINKS FOR puma.buildbin-libdir/puma/libs/i386/puma.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "puma.buildbin-libdir/puma/libs/i386/puma.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "puma.buildbin-libdir/puma/libs/i386/puma.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "puma.buildbin-libdir/puma/libs/i386/puma.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "puma.buildbin-libdir/puma/libs/i386/puma.so"
>>>>>>>
>>>>>>> FIXING LINKS FOR puma.buildbin-libdir/puma/libs/ppc/puma.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "puma.buildbin-libdir/puma/libs/ppc/puma.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "puma.buildbin-libdir/puma/libs/ppc/puma.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "puma.buildbin-libdir/puma/libs/ppc/puma.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "puma.buildbin-libdir/puma/libs/ppc/puma.so"
>>>>>>>
>>>>>>> FIXING LINKS FOR puma.buildbin-libdir/puma/libs/x86_64/puma.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "puma.buildbin-libdir/puma/libs/x86_64/puma.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "puma.buildbin-libdir/puma/libs/x86_64/puma.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "puma.buildbin-libdir/puma/libs/x86_64/puma.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "puma.buildbin-libdir/puma/libs/x86_64/puma.so"