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BioC 3.2: BUILD BIN report for snapCGH on perceval

This page was generated on 2015-11-10 14:45:28 -0800 (Tue, 10 Nov 2015).

Package 990/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
snapCGH 1.40.0
John Marioni
Snapshot Date: 2015-11-09 16:24:09 -0800 (Mon, 09 Nov 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/snapCGH
Last Changed Rev: 109589 / Revision: 110496
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: snapCGH
Version: 1.40.0
Command: rm -rf snapCGH.buildbin-libdir && mkdir snapCGH.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh snapCGH_1.40.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R snapCGH.buildbin-libdir
StartedAt: 2015-11-10 11:48:08 -0800 (Tue, 10 Nov 2015)
EndedAt: 2015-11-10 11:48:23 -0800 (Tue, 10 Nov 2015)
EllapsedTime: 14.7 seconds
RetCode: 0
Status:  OK 
PackageFile: snapCGH_1.40.0.tgz
PackageFileSize: 956.1 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf snapCGH.buildbin-libdir && mkdir snapCGH.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh snapCGH_1.40.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R snapCGH.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=snapCGH.buildbin-libdir snapCGH_1.40.0.tar.gz'
>>>>>>> 

* installing *source* package ‘snapCGH’ ...
** libs
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 optimizer.c -o optimizer.o
optimizer.c: In function ‘fr_two’:
optimizer.c:26: warning: unused variable ‘temp3’
optimizer.c:26: warning: unused variable ‘temp2’
optimizer.c:26: warning: unused variable ‘denom’
optimizer.c: In function ‘fr_three’:
optimizer.c:195: warning: unused variable ‘temp3’
optimizer.c:195: warning: unused variable ‘temp2’
optimizer.c:195: warning: unused variable ‘denom’
optimizer.c:194: warning: unused variable ‘alphahat’
optimizer.c: In function ‘fr_four’:
optimizer.c:413: warning: unused variable ‘temp3’
optimizer.c:413: warning: unused variable ‘temp2’
optimizer.c:413: warning: unused variable ‘denom’
optimizer.c:412: warning: unused variable ‘alphahat’
optimizer.c: In function ‘fr_five’:
optimizer.c:687: warning: unused variable ‘temp3’
optimizer.c:687: warning: unused variable ‘temp2’
optimizer.c:687: warning: unused variable ‘denom’
optimizer.c:686: warning: unused variable ‘alphahat’
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 snapCGH.so optimizer.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/snapCGH.buildbin-libdir/snapCGH/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (snapCGH)


>>>>>>> 
>>>>>>> FIXING LINKS FOR snapCGH.buildbin-libdir/snapCGH/libs//snapCGH.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "snapCGH.buildbin-libdir/snapCGH/libs//snapCGH.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.2.dylib" "snapCGH.buildbin-libdir/snapCGH/libs//snapCGH.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "snapCGH.buildbin-libdir/snapCGH/libs//snapCGH.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "snapCGH.buildbin-libdir/snapCGH/libs//snapCGH.so"