############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf mgsa.buildbin-libdir && mkdir mgsa.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh mgsa_1.53.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R mgsa.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=mgsa.buildbin-libdir mgsa_1.53.0.tar.gz' >>>>>>> * installing *source* package ‘mgsa’ ... ** using staged installation configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using SDK: ‘MacOSX11.3.sdk’ clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I. -fPIC -falign-functions=64 -Wall -g -O2 -c mgsa-core.c -o mgsa-core.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I. -fPIC -falign-functions=64 -Wall -g -O2 -c mgsa.c -o mgsa.o mgsa.c:67:23: warning: more '%' conversions than data arguments [-Wformat-insufficient-args] error("Parameter '%s' has been requested to be discrete but no values were specified"); ~^ 1 warning generated. clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I. -fPIC -falign-functions=64 -Wall -g -O2 -c mt.c -o mt.o clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o mgsa.so mgsa-core.o mgsa.o mt.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.20-bioc/meat/mgsa.buildbin-libdir/00LOCK-mgsa/00new/mgsa/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 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 (mgsa) >>>>>>> >>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR mgsa.buildbin-libdir/mgsa/libs/mgsa.so >>>>>>> >>>>>>> Paths before fix: mgsa.buildbin-libdir/mgsa/libs/mgsa.so: mgsa.so (compatibility version 0.0.0, current version 0.0.0) /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libR.dylib (compatibility version 4.4.0, current version 4.4.1) /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1775.118.101) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5) >>>>>>> Fix with install_name_tool: install_name_tool -change "/usr/local/lib/libgcc_s.1.1.dylib" "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libgcc_s.1.1.dylib" "mgsa.buildbin-libdir/mgsa/libs/mgsa.so" install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libgfortran.5.dylib" "mgsa.buildbin-libdir/mgsa/libs/mgsa.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libquadmath.0.dylib" "mgsa.buildbin-libdir/mgsa/libs/mgsa.so" >>>>>>> Paths after fix: mgsa.buildbin-libdir/mgsa/libs/mgsa.so: mgsa.so (compatibility version 0.0.0, current version 0.0.0) /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libR.dylib (compatibility version 4.4.0, current version 4.4.1) /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1775.118.101) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)