* installing *source* package ‘Rtwobitlib’ ... ** package ‘Rtwobitlib’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ using SDK: ‘MacOSX11.3.sdk’ cd "kent" && make -f "Makefile.Rtwobitlib" mkdir -p "/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include/kent" mkdir -p "/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/usrlib" clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 common.c -o common.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 localmem.c -o localmem.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 errAbort.c -o errAbort.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 hash.c -o hash.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 bits.c -o bits.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 cheapcgi.c -o cheapcgi.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 linefile.c -o linefile.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 obscure.c -o obscure.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 dnautil.c -o dnautil.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 dnaseq.c -o dnaseq.o clang -arch x86_64 -c -falign-functions=64 -Wall -g -O2 -fpic -I/opt/R/x86_64/include -I/Library/Frameworks/R.framework/Resources/include -D_FILE_OFFSET_BITS=64 twoBit.c -o twoBit.o ar -rc libtwobit.a common.o localmem.o errAbort.o hash.o bits.o cheapcgi.o linefile.o obscure.o dnautil.o dnaseq.o twoBit.o ranlib libtwobit.a cd "kent" && cp *.h "/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include/kent" cd "kent" && cp libtwobit.a "/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/usrlib" clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c R_init_Rtwobitlib.c -o R_init_Rtwobitlib.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Rtwobitlib_utils.c -o Rtwobitlib_utils.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c twobit_roundtrip.c -o twobit_roundtrip.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c twobit_seqstats.c -o twobit_seqstats.o clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o Rtwobitlib.so R_init_Rtwobitlib.o Rtwobitlib_utils.o twobit_roundtrip.o twobit_seqstats.o /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/usrlib/libtwobit.a -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation cd "kent" && make -f "Makefile.Rtwobitlib" mkdir -p "/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include/kent" make[1]: Nothing to be done for `all'. cd "kent" && cp *.h "/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include/kent" clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c R_init_Rtwobitlib.c -o R_init_Rtwobitlib.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c Rtwobitlib_utils.c -o Rtwobitlib_utils.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c twobit_roundtrip.c -o twobit_roundtrip.o clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/include" -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c twobit_seqstats.c -o twobit_seqstats.o installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00LOCK-Rtwobitlib/00new/Rtwobitlib/libs ** generating debug symbols (dSYM) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/R_init_Rtwobitlib.o: timestamp mismatch between object file (2024-05-30 16:20:48.996171423) and debug map (2024-05-30 16:20:47.000000000) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/Rtwobitlib_utils.o: timestamp mismatch between object file (2024-05-30 16:20:49.018199223) and debug map (2024-05-30 16:20:47.000000000) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/twobit_roundtrip.o: timestamp mismatch between object file (2024-05-30 16:20:49.055242339) and debug map (2024-05-30 16:20:47.000000000) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/twobit_seqstats.o: timestamp mismatch between object file (2024-05-30 16:20:49.044701565) and debug map (2024-05-30 16:20:47.000000000) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/R_init_Rtwobitlib.o: timestamp mismatch between object file (2024-05-30 16:20:48.996171423) and debug map (2024-05-30 16:20:47.000000000) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/Rtwobitlib_utils.o: timestamp mismatch between object file (2024-05-30 16:20:49.018199223) and debug map (2024-05-30 16:20:47.000000000) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/twobit_roundtrip.o: timestamp mismatch between object file (2024-05-30 16:20:49.055242339) and debug map (2024-05-30 16:20:47.000000000) warning: /Volumes/Builds/packages/big-sur-x86_64/results/4.4/Rtwobitlib.Rcheck/00_pkg_src/Rtwobitlib/src/twobit_seqstats.o: timestamp mismatch between object file (2024-05-30 16:20:49.044701565) and debug map (2024-05-30 16:20:47.000000000) ** 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 (Rtwobitlib)