############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf GSVA.buildbin-libdir && mkdir GSVA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GSVA_1.42.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R GSVA.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GSVA.buildbin-libdir GSVA_1.42.0.tar.gz' >>>>>>> * installing *source* package ‘GSVA’ ... ** using staged installation ** libs clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c kernel_estimation.c -o kernel_estimation.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c ks_test.c -o ks_test.o ks_test.c:24:9: warning: unused variable 'mx_value' [-Wunused-variable] double mx_value = 0.0; ^ 1 warning generated. clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c register_cmethods.c -o register_cmethods.o clang -mmacosx-version-min=10.13 -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 GSVA.so kernel_estimation.o ks_test.o register_cmethods.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.14-bioc/meat/GSVA.buildbin-libdir/00LOCK-GSVA/00new/GSVA/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 (GSVA) >>>>>>> >>>>>>> FIXING LINKS FOR GSVA.buildbin-libdir/GSVA/libs/GSVA.so >>>>>>> install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgcc_s.1.dylib" "GSVA.buildbin-libdir/GSVA/libs/GSVA.so" install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "GSVA.buildbin-libdir/GSVA/libs/GSVA.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "GSVA.buildbin-libdir/GSVA/libs/GSVA.so"