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BioC 3.2: BUILD BIN report for BGmix on oaxaca

This page was generated on 2016-04-23 10:23:52 -0700 (Sat, 23 Apr 2016).

Package 86/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BGmix 1.30.0
Alex Lewin
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/BGmix
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64 ...NOT SUPPORTED...NOT SUPPORTED...NOT SUPPORTED...
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: BGmix
Version: 1.30.0
Command: rm -rf BGmix.buildbin-libdir && mkdir BGmix.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BGmix_1.30.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R BGmix.buildbin-libdir
StartedAt: 2016-04-23 05:30:23 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 05:30:32 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 9.2 seconds
RetCode: 0
Status:  OK 
PackageFile: BGmix_1.30.0.tgz
PackageFileSize: 390.4 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf BGmix.buildbin-libdir && mkdir BGmix.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BGmix_1.30.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R BGmix.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=BGmix.buildbin-libdir BGmix_1.30.0.tar.gz'
>>>>>>> 

* installing *source* package ‘BGmix’ ...
checking for gcc... clang
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
checking for clang option to accept ISO C99... none needed
checking for cos in -lm... yes
Untarring Boost header files...
checking for an ANSI C-conforming const... yes
checking for inline... inline
configure: creating ./config.status
config.status: creating src/Makevars
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I ../boostIncl -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -DUSING_R -c BGmix_main.cpp -o BGmix_main.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I ../boostIncl -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -DUSING_R -c rundir.cpp -o rundir.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I ../boostIncl -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -DUSING_R -c updates_BGmix.cpp -o updates_BGmix.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 BGmix.so BGmix_main.o rundir.o updates_BGmix.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
rm -r ../boostIncl 
installing to /Users/biocbuild/bbs-3.2-bioc/meat/BGmix.buildbin-libdir/BGmix/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 (BGmix)


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