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BioC 3.3: BUILD BIN report for cn.mops on oaxaca

This page was generated on 2016-10-13 12:58:06 -0700 (Thu, 13 Oct 2016).

Package 208/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cn.mops 1.18.0
Guenter Klambauer
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/cn.mops
Last Changed Rev: 117079 / Revision: 122332
Last Changed Date: 2016-05-03 14:20:18 -0700 (Tue, 03 May 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  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 ]UNNEEDED, same version exists in internal repository

Summary

Package: cn.mops
Version: 1.18.0
Command: rm -rf cn.mops.buildbin-libdir && mkdir cn.mops.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh cn.mops_1.18.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R cn.mops.buildbin-libdir
StartedAt: 2016-10-13 07:28:49 -0700 (Thu, 13 Oct 2016)
EndedAt: 2016-10-13 07:29:02 -0700 (Thu, 13 Oct 2016)
EllapsedTime: 12.7 seconds
RetCode: 0
Status:  OK 
PackageFile: cn.mops_1.18.0.tgz
PackageFileSize: 1.086 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf cn.mops.buildbin-libdir && mkdir cn.mops.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh cn.mops_1.18.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R cn.mops.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=cn.mops.buildbin-libdir cn.mops_1.18.0.tar.gz'
>>>>>>> 

* installing *source* package ‘cn.mops’ ...
** 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 R_init_cnmops.c -o R_init_cnmops.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 cnmops.cpp -o cnmops.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 segment.cpp -o segment.o
segment.cpp:64:9: warning: unused variable 'Rf_beta' [-Wunused-variable]
        double beta,nn;
               ^
/Library/Frameworks/R.framework/Resources/include/Rmath.h:228:15: note: expanded from macro 'beta'
#define beta            Rf_beta
                        ^
1 warning generated.
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 cn.mops.so R_init_cnmops.o cnmops.o segment.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.3-bioc/meat/cn.mops.buildbin-libdir/cn.mops/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 (cn.mops)


>>>>>>> 
>>>>>>> FIXING LINKS FOR cn.mops.buildbin-libdir/cn.mops/libs//cn.mops.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" "cn.mops.buildbin-libdir/cn.mops/libs//cn.mops.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgfortran.3.dylib" "cn.mops.buildbin-libdir/cn.mops/libs//cn.mops.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" "cn.mops.buildbin-libdir/cn.mops/libs//cn.mops.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.dylib" "cn.mops.buildbin-libdir/cn.mops/libs//cn.mops.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libquadmath.0.dylib" "cn.mops.buildbin-libdir/cn.mops/libs//cn.mops.so"