Package: FlowSOM

Version: 1.12.0

Command: rm -rf FlowSOM.buildbin-libdir && mkdir FlowSOM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh FlowSOM_1.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R FlowSOM.buildbin-libdir

StartedAt: 2018-10-17 01:20:26 -0400 (Wed, 17 Oct 2018)

EndedAt: 2018-10-17 01:21:11 -0400 (Wed, 17 Oct 2018)

EllapsedTime: 45.2 seconds

RetCode: 0

Status:  OK

PackageFile: FlowSOM_1.12.0.tgz

PackageFileSize: 2.636 MiB

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### Running command:
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###   rm -rf FlowSOM.buildbin-libdir && mkdir FlowSOM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh FlowSOM_1.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R FlowSOM.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=FlowSOM.buildbin-libdir FlowSOM_1.12.0.tar.gz'
>>>>>>> 

* installing *source* package ‘FlowSOM’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c som.c -o som.o
som.c:37:18: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
        xdist += abs(tmp);
                 ^
som.c:37:18: note: use function 'fabs' instead
        xdist += abs(tmp);
                 ^˜˜
                 fabs
som.c:47:15: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
        tmp = abs(tmp);
              ^
som.c:47:15: note: use function 'fabs' instead
        tmp = abs(tmp);
              ^˜˜
              fabs
som.c:134:27: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
                change += abs(tmp);
                          ^
som.c:134:27: note: use function 'fabs' instead
                change += abs(tmp);
                          ^˜˜
                          fabs
3 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 FlowSOM.so som.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/FlowSOM.buildbin-libdir/FlowSOM/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 (FlowSOM)


>>>>>>> 
>>>>>>> FIXING LINKS FOR FlowSOM.buildbin-libdir/FlowSOM/libs//FlowSOM.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" "FlowSOM.buildbin-libdir/FlowSOM/libs//FlowSOM.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "FlowSOM.buildbin-libdir/FlowSOM/libs//FlowSOM.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" "FlowSOM.buildbin-libdir/FlowSOM/libs//FlowSOM.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.dylib" "FlowSOM.buildbin-libdir/FlowSOM/libs//FlowSOM.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "FlowSOM.buildbin-libdir/FlowSOM/libs//FlowSOM.so"