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BioC 3.1: BUILD BIN report for diffHic on morelia

This page was generated on 2015-10-09 09:42:57 -0700 (Fri, 09 Oct 2015).

Package 262/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
diffHic 1.0.1
Aaron Lun
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/diffHic
Last Changed Rev: 107522 / Revision: 109384
Last Changed Date: 2015-08-17 21:12:18 -0700 (Mon, 17 Aug 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: diffHic
Version: 1.0.1
Command: rm -rf diffHic.buildbin-libdir && mkdir diffHic.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh diffHic_1.0.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R diffHic.buildbin-libdir
StartedAt: 2015-10-09 07:40:40 -0700 (Fri, 09 Oct 2015)
EndedAt: 2015-10-09 07:41:12 -0700 (Fri, 09 Oct 2015)
EllapsedTime: 31.7 seconds
RetCode: 0
Status:  OK 
PackageFile: diffHic_1.0.1.tgz
PackageFileSize: 2.078 MiB

Command output

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###
### Running command:
###
###   rm -rf diffHic.buildbin-libdir && mkdir diffHic.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh diffHic_1.0.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R diffHic.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=diffHic.buildbin-libdir diffHic_1.0.1.tar.gz'
>>>>>>> 

* installing *source* package ‘diffHic’ ...
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c check_input.cpp -o check_input.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c cluster_2d.cpp -o cluster_2d.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c count_connect.cpp -o count_connect.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c count_marginals.cpp -o count_marginals.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c count_patch.cpp -o count_patch.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c init.cpp -o init.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c iterative_correction.cpp -o iterative_correction.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c pair_stats.cpp -o pair_stats.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c quadrant_bg.cpp -o quadrant_bg.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c report_hic_pairs.cpp -o report_hic_pairs.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c trended_filter.cpp -o trended_filter.o
clang++ -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 -o diffHic.so check_input.o cluster_2d.o count_connect.o count_marginals.o count_patch.o init.o iterative_correction.o pair_stats.o quadrant_bg.o report_hic_pairs.o trended_filter.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.1-bioc/meat/diffHic.buildbin-libdir/diffHic/libs
** R
** inst
** preparing package for lazy loading
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
* DONE (diffHic)


>>>>>>> 
>>>>>>> FIXING LINKS FOR diffHic.buildbin-libdir/diffHic/libs//diffHic.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" "diffHic.buildbin-libdir/diffHic/libs//diffHic.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "diffHic.buildbin-libdir/diffHic/libs//diffHic.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" "diffHic.buildbin-libdir/diffHic/libs//diffHic.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "diffHic.buildbin-libdir/diffHic/libs//diffHic.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "diffHic.buildbin-libdir/diffHic/libs//diffHic.so"