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BioC 3.4: BUILD BIN report for pqsfinder on morelia

This page was generated on 2016-09-21 03:55:54 -0700 (Wed, 21 Sep 2016).

Package 915/1257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
pqsfinder 1.1.2
Jiri Hon
Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/pqsfinder
Last Changed Rev: 117512 / Revision: 121152
Last Changed Date: 2016-05-15 13:14:22 -0700 (Sun, 15 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: pqsfinder
Version: 1.1.2
Command: rm -rf pqsfinder.buildbin-libdir && mkdir pqsfinder.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh pqsfinder_1.1.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R pqsfinder.buildbin-libdir
StartedAt: 2016-09-20 15:22:07 -0700 (Tue, 20 Sep 2016)
EndedAt: 2016-09-20 15:22:29 -0700 (Tue, 20 Sep 2016)
EllapsedTime: 21.3 seconds
RetCode: 0
Status:  OK 
PackageFile: pqsfinder_1.1.2.tgz
PackageFileSize: 357 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf pqsfinder.buildbin-libdir && mkdir pqsfinder.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh pqsfinder_1.1.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R pqsfinder.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=pqsfinder.buildbin-libdir pqsfinder_1.1.2.tar.gz'
>>>>>>> 

* installing *source* package ‘pqsfinder’ ...
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/flowCore/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/flowCore/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c pqsfinder.cpp -o pqsfinder.o
In file included from pqsfinder.cpp:14:
In file included from /Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include/boost/regex.hpp:31:
In file included from /Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include/boost/regex/v4/regex.hpp:97:
/Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include/boost/regex/v4/instances.hpp:124:34: warning: unknown warning group '-Wkeyword-macro', ignored [-Wunknown-pragmas]
#pragma clang diagnostic ignored "-Wkeyword-macro"
                                 ^
In file included from pqsfinder.cpp:14:
In file included from /Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include/boost/regex.hpp:31:
In file included from /Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include/boost/regex/v4/regex.hpp:108:
/Library/Frameworks/R.framework/Versions/3.3/Resources/library/BH/include/boost/regex/v4/instances.hpp:124:34: warning: unknown warning group '-Wkeyword-macro', ignored [-Wunknown-pragmas]
#pragma clang diagnostic ignored "-Wkeyword-macro"
                                 ^
2 warnings 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 pqsfinder.so RcppExports.o pqsfinder.o /Library/Frameworks/R.framework/Versions/3.3/Resources/library/flowCore/lib/libboost_regex.a -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.4-bioc/meat/pqsfinder.buildbin-libdir/pqsfinder/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (pqsfinder)


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