Package: ADaCGH2

Version: 2.23.0

Command: rm -rf ADaCGH2.buildbin-libdir && mkdir ADaCGH2.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ADaCGH2_2.23.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ADaCGH2.buildbin-libdir

StartedAt: 2019-04-09 04:39:17 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 04:40:39 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 81.6 seconds

RetCode: 0

Status:  OK

PackageFile: ADaCGH2_2.23.0.tgz

PackageFileSize: 1.188 MiB

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### Running command:
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###   rm -rf ADaCGH2.buildbin-libdir && mkdir ADaCGH2.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ADaCGH2_2.23.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ADaCGH2.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=ADaCGH2.buildbin-libdir ADaCGH2_2.23.0.tar.gz'
>>>>>>> 

* installing *source* package ‘ADaCGH2’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.c -o init.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c r_haarseg.c -o r_haarseg.o
r_haarseg.c:65:12: warning: unused variable 'totalNorm' [-Wunused-variable]
    double totalNorm;
           ^
r_haarseg.c:152:8: warning: '/*' within block comment [-Wcomment]
                                         }/* for j */
                                          ^
r_haarseg.c:176:8: warning: '/*' within block comment [-Wcomment]
                                         }/* for j */
                                          ^
r_haarseg.c:128:9: warning: unused variable 'j' [-Wunused-variable]
         int k,j;
               ^
4 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 ADaCGH2.so init.o r_haarseg.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/ADaCGH2.buildbin-libdir/ADaCGH2/libs
** R
** data
** 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 (ADaCGH2)


>>>>>>> 
>>>>>>> FIXING LINKS FOR ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.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" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.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" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"