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BioC 3.5: BUILD BIN report for SMAP on veracruz2

This page was generated on 2017-10-18 14:28:15 -0400 (Wed, 18 Oct 2017).

Package 1234/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SMAP 1.40.0
Robin Andersson
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/SMAP
Branch: RELEASE_3_5
Last Commit: 9e44f35
Last Changed Date: 2017-09-01 01:20:59 -0400 (Fri, 01 Sep 2017)
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  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: SMAP
Version: 1.40.0
Command: rm -rf SMAP.buildbin-libdir && mkdir SMAP.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh SMAP_1.40.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R SMAP.buildbin-libdir
StartedAt: 2017-10-18 11:33:46 -0400 (Wed, 18 Oct 2017)
EndedAt: 2017-10-18 11:33:51 -0400 (Wed, 18 Oct 2017)
EllapsedTime: 5.1 seconds
RetCode: 0
Status:  OK 
PackageFile: SMAP_1.40.0.tgz
PackageFileSize: 1.276 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf SMAP.buildbin-libdir && mkdir SMAP.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh SMAP_1.40.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R SMAP.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=SMAP.buildbin-libdir SMAP_1.40.0.tar.gz'
>>>>>>> 

* installing *source* package ‘SMAP’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c gradient.c -o gradient.o
gradient.c:247:10: warning: unused variable 'tmp' [-Wunused-variable]
                double tmp;
                       ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.c -o init.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c overlap.c -o overlap.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c prob.c -o prob.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c viterbi.c -o viterbi.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 SMAP.so gradient.o init.o overlap.o prob.o viterbi.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.5-bioc/meat/SMAP.buildbin-libdir/SMAP/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 (SMAP)


>>>>>>> 
>>>>>>> FIXING LINKS FOR SMAP.buildbin-libdir/SMAP/libs//SMAP.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" "SMAP.buildbin-libdir/SMAP/libs//SMAP.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "SMAP.buildbin-libdir/SMAP/libs//SMAP.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" "SMAP.buildbin-libdir/SMAP/libs//SMAP.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "SMAP.buildbin-libdir/SMAP/libs//SMAP.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "SMAP.buildbin-libdir/SMAP/libs//SMAP.so"