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BioC 3.5: BUILD BIN report for BGmix on oaxaca

This page was generated on 2017-03-04 16:35:41 -0500 (Sat, 04 Mar 2017).

Package 99/1339HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BGmix 1.35.0
Alex Lewin
Snapshot Date: 2017-03-03 17:15:47 -0500 (Fri, 03 Mar 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/BGmix
Last Changed Rev: 122712 / Revision: 127142
Last Changed Date: 2016-10-17 15:10:43 -0400 (Mon, 17 Oct 2016)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 ...NOT SUPPORTED...NOT SUPPORTED...NOT SUPPORTED...
toluca2 Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]

Summary

Package: BGmix
Version: 1.35.0
Command: rm -rf BGmix.buildbin-libdir && mkdir BGmix.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BGmix_1.35.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R BGmix.buildbin-libdir
StartedAt: 2017-03-04 10:55:49 -0800 (Sat, 04 Mar 2017)
EndedAt: 2017-03-04 10:56:11 -0800 (Sat, 04 Mar 2017)
EllapsedTime: 22.1 seconds
RetCode: 0
Status:  OK 
PackageFile: BGmix_1.35.0.tgz
PackageFileSize: 390.3 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf BGmix.buildbin-libdir && mkdir BGmix.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BGmix_1.35.0.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_1.35.0.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-3.5-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/3.4/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/3.4/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/3.4/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/3.4/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/3.4/Resources/lib/libquadmath.0.dylib" "BGmix.buildbin-libdir/BGmix/libs//BGmix.so"