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BioC 3.5: BUILD BIN report for Harman on oaxaca

This page was generated on 2017-03-04 16:52:23 -0500 (Sat, 04 Mar 2017).

Package 594/1339HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Harman 1.3.0
Jason Ross
Snapshot Date: 2017-03-03 17:15:47 -0500 (Fri, 03 Mar 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Harman
Last Changed Rev: 122712 / Revision: 127142
Last Changed Date: 2016-10-17 15:10:43 -0400 (Mon, 17 Oct 2016)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  WARNINGS 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
toluca2 Mac OS X Mavericks (10.9.5) / x86_64  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 ]

Summary

Package: Harman
Version: 1.3.0
Command: rm -rf Harman.buildbin-libdir && mkdir Harman.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Harman_1.3.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Harman.buildbin-libdir
StartedAt: 2017-03-04 11:35:40 -0800 (Sat, 04 Mar 2017)
EndedAt: 2017-03-04 11:36:07 -0800 (Sat, 04 Mar 2017)
EllapsedTime: 26.7 seconds
RetCode: 0
Status:  OK 
PackageFile: Harman_1.3.0.tgz
PackageFileSize: 1.063 MiB

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf Harman.buildbin-libdir && mkdir Harman.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Harman_1.3.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Harman.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=Harman.buildbin-libdir Harman_1.3.0.tar.gz'
>>>>>>> 

* installing *source* package ‘Harman’ ...
** libs
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -D_ARRAYALIGNEMT=4 -D_USE_RCPP=1 -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include  `/Library/Frameworks/R.framework/Resources/bin/Rscript -e "Rcpp:::CxxFlags()"` -I.  -fPIC  -Wall -mtune=core2 -g -O2  -c Harman.cpp -o Harman.o
In file included from Harman.cpp:182:
./CSelectRandom.h:392:11: warning: unused variable 'currindex' [-Wunused-variable]
                 size_t currindex ;
                        ^
./CSelectRandom.h:638:20: warning: unused variable 'ts1' [-Wunused-variable]
                        struct timespec ts1, ts2 ;
                                        ^
./CSelectRandom.h:638:25: warning: unused variable 'ts2' [-Wunused-variable]
                        struct timespec ts1, ts2 ;
                                             ^
./CSelectRandom.h:639:11: warning: unused variable 'time1' [-Wunused-variable]
                        double time1, time2 ;
                               ^
./CSelectRandom.h:639:18: warning: unused variable 'time2' [-Wunused-variable]
                        double time1, time2 ;
                                      ^
./CSelectRandom.h:1019:23: warning: unused variable 'randData2' [-Wunused-variable]
                                size_t randData1, randData2  ;
                                                  ^
6 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 Harman.so Harman.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.5-bioc/meat/Harman.buildbin-libdir/Harman/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 (Harman)


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