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BUILD BIN report for Harman on celaya2

This page was generated on 2019-03-24 12:51:45 -0400 (Sun, 24 Mar 2019).

Package 723/1685HostnameOS / ArchINSTALLBUILDCHECK
Harman 1.11.0
Jason Ross
Snapshot Date: 2019-03-23 17:00:11 -0400 (Sat, 23 Mar 2019)
URL: https://git.bioconductor.org/packages/Harman
Branch: master
Last Commit: 61ae188
Last Changed Date: 2018-10-30 11:54:36 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK 

Summary

Package: Harman
Version: 1.11.0
Command: rm -rf Harman.buildbin-libdir && mkdir Harman.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Harman_1.11.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Harman.buildbin-libdir
StartedAt: 2019-03-24 06:41:21 -0400 (Sun, 24 Mar 2019)
EndedAt: 2019-03-24 06:41:45 -0400 (Sun, 24 Mar 2019)
EllapsedTime: 23.8 seconds
RetCode: 0
Status:  OK 
PackageFile: Harman_1.11.0.tgz
PackageFileSize: 2.341 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_1.11.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Harman.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=Harman.buildbin-libdir Harman_1.11.0.tar.gz'
>>>>>>> 

* installing *source* package ‘Harman’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_ARRAYALIGNEMT=4 -D_USE_RCPP=1 -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I/usr/local/include `/Library/Frameworks/R.framework/Resources/bin/Rscript -e "Rcpp:::CxxFlags()"` -I.  -fPIC  -Wall -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: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:638:25: warning: unused variable 'ts2' [-Wunused-variable]
                        struct timespec ts1, ts2 ;
                                             ^
./CSelectRandom.h:638:20: warning: unused variable 'ts1' [-Wunused-variable]
                        struct timespec ts1, ts2 ;
                                        ^
./CSelectRandom.h:1019:23: warning: unused variable 'randData2' [-Wunused-variable]
                                size_t randData1, randData2  ;
                                                  ^
6 warnings generated.
clang++ -std=gnu++11 -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-3.9-bioc/meat/Harman.buildbin-libdir/00LOCK-Harman/00new/Harman/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* 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/3.6/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/3.6/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/3.6/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/3.6/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/3.6/Resources/lib/libquadmath.0.dylib" "Harman.buildbin-libdir/Harman/libs//Harman.so"