############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.44.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R biovizBase.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=biovizBase.buildbin-libdir biovizBase_1.44.0.tar.gz' >>>>>>> * installing *source* package ‘biovizBase’ ... ** 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 R_init_biovizBase.c -o R_init_biovizBase.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c bin_offsets.c -o bin_offsets.o bin_offsets.c:57:15: warning: passing 'Rbyte *' (aka 'unsigned char *') to parameter of type 'const char *' converts between pointers to integer types with different sign [-Wpointer-sign] if (strncmp(b, "BAI\1", 4)) ^ /Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/string.h:84:26: note: passing argument to parameter '__s1' here int strncmp(const char *__s1, const char *__s2, size_t __n); ^ 1 warning generated. 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 biovizBase.so R_init_biovizBase.o bin_offsets.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.15-bioc/meat/biovizBase.buildbin-libdir/00LOCK-biovizBase/00new/biovizBase/libs ** R ** data *** moving datasets to lazyload DB ** 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 (biovizBase) >>>>>>> >>>>>>> FIXING LINKS FOR biovizBase.buildbin-libdir/biovizBase/libs/biovizBase.so >>>>>>> install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgcc_s.1.dylib" "biovizBase.buildbin-libdir/biovizBase/libs/biovizBase.so" install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgfortran.5.dylib" "biovizBase.buildbin-libdir/biovizBase/libs/biovizBase.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libquadmath.0.dylib" "biovizBase.buildbin-libdir/biovizBase/libs/biovizBase.so"