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Package 588/609HostnameOS / ArchBUILDCHECKBUILD BIN
tweeDEseq 1.4.1
Juan R Gonzalez
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/tweeDEseq
Last Changed Rev: 72462 / Revision: 74773
Last Changed Date: 2013-01-11 07:24:37 -0800 (Fri, 11 Jan 2013)
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: tweeDEseq
Version: 1.4.1
Command: rm -rf tweeDEseq.buildbin-libdir && mkdir tweeDEseq.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh tweeDEseq_1.4.1.tar.gz /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R tweeDEseq.buildbin-libdir
StartedAt: 2013-03-25 02:10:56 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 02:11:09 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 12.7 seconds
RetCode: 0
Status:  OK 
PackageFile: tweeDEseq_1.4.1.tgz
PackageFileSize: 420.3 KiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=tweeDEseq.buildbin-libdir tweeDEseq_1.4.1.tar.gz'
>>>>>>> 

* installing *source* package 'tweeDEseq' ...
** 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 cov_wt_C.c -o cov_wt_C.o
cov_wt_C.c: In function 'momentEstimates_wt_C':
cov_wt_C.c:116: warning: 'moments' may be used uninitialized in this function
cov_wt_C.c: In function 'cov_wt_C':
cov_wt_C.c:49: warning: 'wvar' 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 init_tweeDEseq.c -o init_tweeDEseq.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 loglikGlm.c -o loglikGlm.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 logprobs.c -o logprobs.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 permtest.c -o permtest.o
permtest.c: In function 'pval':
permtest.c:43: warning: control reaches end of non-void 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 probs.c -o probs.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 zhu2.c -o zhu2.o
zhu2.c: In function 'zhuprobs':
zhu2.c:30: warning: ordered comparison of pointer with integer zero
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 zhu3.c -o zhu3.o
gcc -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o tweeDEseq.so cov_wt_C.o init_tweeDEseq.o loglikGlm.o logprobs.o permtest.o probs.o zhu2.o zhu3.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/tweeDEseq.buildbin-libdir/tweeDEseq/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'tweeDEseq.Rnw' using 'UTF-8' 
** testing if installed package can be loaded

* DONE (tweeDEseq)


>>>>>>> 
>>>>>>> FIXING LINKS FOR tweeDEseq.buildbin-libdir/tweeDEseq/libs/i386/tweeDEseq.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" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/i386/tweeDEseq.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/i386/tweeDEseq.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" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/i386/tweeDEseq.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/i386/tweeDEseq.so"


>>>>>>> 
>>>>>>> INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --preclean --no-multiarch --no-test-load --library=tweeDEseq.buildbin-libdir --libs-only tweeDEseq_1.4.1.tar.gz'
>>>>>>> 

* installing *source* package 'tweeDEseq' ...
** 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 cov_wt_C.c -o cov_wt_C.o
cov_wt_C.c: In function 'momentEstimates_wt_C':
cov_wt_C.c:116: warning: 'moments' may be used uninitialized in this function
cov_wt_C.c: In function 'cov_wt_C':
cov_wt_C.c:49: warning: 'wvar' 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 init_tweeDEseq.c -o init_tweeDEseq.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 loglikGlm.c -o loglikGlm.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 logprobs.c -o logprobs.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 permtest.c -o permtest.o
permtest.c: In function 'pval':
permtest.c:43: warning: control reaches end of non-void 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 probs.c -o probs.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 zhu2.c -o zhu2.o
zhu2.c: In function 'zhuprobs':
zhu2.c:30: warning: ordered comparison of pointer with integer zero
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 zhu3.c -o zhu3.o
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 tweeDEseq.so cov_wt_C.o init_tweeDEseq.o loglikGlm.o logprobs.o permtest.o probs.o zhu2.o zhu3.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/tweeDEseq.buildbin-libdir/tweeDEseq/libs/x86_64

* DONE (tweeDEseq)


>>>>>>> 
>>>>>>> FIXING LINKS FOR tweeDEseq.buildbin-libdir/tweeDEseq/libs/x86_64/tweeDEseq.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" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/x86_64/tweeDEseq.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libgfortran.2.dylib" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/x86_64/tweeDEseq.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" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/x86_64/tweeDEseq.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libreadline.dylib" "tweeDEseq.buildbin-libdir/tweeDEseq/libs/x86_64/tweeDEseq.so"