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BioC 2.13: BUILD BIN report for iBMQ on perceval

This page was generated on 2014-04-05 09:53:00 -0700 (Sat, 05 Apr 2014).

Package 361/750HostnameOS / ArchBUILDCHECKBUILD BIN
iBMQ 1.2.0
Marie-Pier Scott-Boyer
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/iBMQ
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK [ OK ]

Summary

Package: iBMQ
Version: 1.2.0
Command: rm -rf iBMQ.buildbin-libdir && mkdir iBMQ.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh iBMQ_1.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R iBMQ.buildbin-libdir
StartedAt: 2014-04-05 05:27:30 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 05:27:42 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 11.5 seconds
RetCode: 0
Status:  OK 
PackageFile: iBMQ_1.2.0.tgz
PackageFileSize: 2.348 MiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=iBMQ.buildbin-libdir iBMQ_1.2.0.tar.gz'
>>>>>>> 

* installing *source* package ‘iBMQ’ ...
checking for gcc... llvm-gcc-4.2 -arch x86_64 -std=gnu99
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 llvm-gcc-4.2 -arch x86_64 -std=gnu99 accepts -g... yes
checking for llvm-gcc-4.2 -arch x86_64 -std=gnu99 option to accept ISO C89... none needed
checking how to run the C preprocessor... llvm-gcc-4.2 -arch x86_64 -std=gnu99 -E
checking for pkg-config... /usr/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... yes
checking omp.h presence... yes
checking for omp.h... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -fopenmp -fPIC  -mtune=core2 -g -O2 -Wall  -c ARS.c -o ARS.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -fopenmp -fPIC  -mtune=core2 -g -O2 -Wall  -c RngStream.c -o RngStream.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -fopenmp -fPIC  -mtune=core2 -g -O2 -Wall  -c iBMQ_common.c -o iBMQ_common.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -fopenmp -fPIC  -mtune=core2 -g -O2 -Wall  -c main_parallel_sparse.c -o main_parallel_sparse.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -fopenmp -fPIC  -mtune=core2 -g -O2 -Wall  -c main_parallel_sparse_constC.c -o main_parallel_sparse_constC.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -fopenmp -fPIC  -mtune=core2 -g -O2 -Wall  -c norm_gamma_generation.c -o norm_gamma_generation.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -fopenmp -fPIC  -mtune=core2 -g -O2 -Wall  -c sparse.c -o sparse.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/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 -lgomp -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.13-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/3.0/Resources/lib/libgcc_s.1.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/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/3.0/Resources/lib/libreadline.dylib" "iBMQ.buildbin-libdir/iBMQ/libs//iBMQ.so"