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BUILD BIN report for GraphAlignment on merida2

This page was generated on 2018-10-17 08:47:36 -0400 (Wed, 17 Oct 2018).

Package 645/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GraphAlignment 1.44.0
Joern P. Meier
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/GraphAlignment
Branch: RELEASE_3_7
Last Commit: 84c0b54
Last Changed Date: 2018-04-30 10:35:08 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: GraphAlignment
Version: 1.44.0
Command: rm -rf GraphAlignment.buildbin-libdir && mkdir GraphAlignment.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GraphAlignment_1.44.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GraphAlignment.buildbin-libdir
StartedAt: 2018-10-17 01:27:14 -0400 (Wed, 17 Oct 2018)
EndedAt: 2018-10-17 01:28:11 -0400 (Wed, 17 Oct 2018)
EllapsedTime: 57.2 seconds
RetCode: 0
Status:  OK 
PackageFile: GraphAlignment_1.44.0.tgz
PackageFileSize: 414.3 KiB

Command output

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###
### Running command:
###
###   rm -rf GraphAlignment.buildbin-libdir && mkdir GraphAlignment.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GraphAlignment_1.44.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GraphAlignment.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GraphAlignment.buildbin-libdir GraphAlignment_1.44.0.tar.gz'
>>>>>>> 

* installing *source* package ‘GraphAlignment’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GA_alloc.c -o GA_alloc.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GA_matrix.c -o GA_matrix.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GA_matrix_R.c -o GA_matrix_R.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GA_message.c -o GA_message.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GA_vector.c -o GA_vector.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GA_vector_R.c -o GA_vector_R.o
GA_vector_R.c:139:9: warning: unused variable 'size' [-Wunused-variable]
    int size = LENGTH(robj);
        ^
1 warning generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GraphAlignment.c -o GraphAlignment.o
GraphAlignment.c:143:23: warning: add explicit braces to avoid dangling else [-Wdangling-else]
                    } else
                      ^
GraphAlignment.c:164:23: warning: add explicit braces to avoid dangling else [-Wdangling-else]
                    } else
                      ^
GraphAlignment.c:264:9: warning: unused variable 'size' [-Wunused-variable]
    int size = LENGTH(robj);
        ^
3 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c lap.c -o lap.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 GraphAlignment.so GA_alloc.o GA_matrix.o GA_matrix_R.o GA_message.o GA_vector.o GA_vector_R.o GraphAlignment.o lap.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/GraphAlignment.buildbin-libdir/GraphAlignment/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
* DONE (GraphAlignment)


>>>>>>> 
>>>>>>> FIXING LINKS FOR GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgcc_s.1.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.5.2.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "GraphAlignment.buildbin-libdir/GraphAlignment/libs//GraphAlignment.so"