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BioC 3.4: BUILD BIN report for iBMQ on morelia

This page was generated on 2016-09-21 03:52:05 -0700 (Wed, 21 Sep 2016).

Package 594/1257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iBMQ 1.13.0
Greg Imholte
Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/iBMQ
Last Changed Rev: 117081 / Revision: 121152
Last Changed Date: 2016-05-03 14:30:44 -0700 (Tue, 03 May 2016)
zin1 Linux (Ubuntu 16.04 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  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: iBMQ
Version: 1.13.0
Command: rm -rf iBMQ.buildbin-libdir && mkdir iBMQ.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh iBMQ_1.13.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R iBMQ.buildbin-libdir
StartedAt: 2016-09-20 15:05:31 -0700 (Tue, 20 Sep 2016)
EndedAt: 2016-09-20 15:05:38 -0700 (Tue, 20 Sep 2016)
EllapsedTime: 7.0 seconds
RetCode: 0
Status:  OK 
PackageFile: iBMQ_1.13.0.tgz
PackageFileSize: 2.354 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf iBMQ.buildbin-libdir && mkdir iBMQ.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh iBMQ_1.13.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R iBMQ.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=iBMQ.buildbin-libdir iBMQ_1.13.0.tar.gz'
>>>>>>> 

* installing *source* package ‘iBMQ’ ...
checking for gcc... clang
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
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 how to run the C preprocessor... clang -E
checking for pkg-config... /usr/local/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for GSL... yes
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... rm: conftest.dSYM: is a directory
rm: conftest.dSYM: is a directory
yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking omp.h usability... no
checking omp.h presence... no
checking for omp.h... no
configure: no parallelism
configure: creating ./config.status
config.status: creating src/Makevars
** 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 ARS.c -o ARS.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 RngStream.c -o RngStream.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 iBMQ_common.c -o iBMQ_common.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 main_parallel_sparse.c -o main_parallel_sparse.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 main_parallel_sparse_constC.c -o main_parallel_sparse_constC.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 norm_gamma_generation.c -o norm_gamma_generation.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 sparse.c -o sparse.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 iBMQ.so ARS.o RngStream.o iBMQ_common.o main_parallel_sparse.o main_parallel_sparse_constC.o norm_gamma_generation.o sparse.o -L/usr/local/lib -lgsl -lgslcblas -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.4-bioc/meat/iBMQ.buildbin-libdir/iBMQ/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 (iBMQ)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgcc_s.1.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgfortran.3.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.5.2.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libquadmath.0.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"