* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’ * installing *source* package ‘dbarts’ ... ** package ‘dbarts’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... clang-18 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether clang-18 accepts -g... yes checking for clang-18 option to enable C11 features... none needed checking how to run the C preprocessor... clang-18 -E checking whether the compiler supports GNU C++... yes checking whether clang++-18 -std=gnu++17 accepts -g... yes checking for clang++-18 -std=gnu++17 option to enable C++11 features... none needed checking how to run the C++ preprocessor... clang++-18 -std=gnu++17 -E checking for C/C++ restrict keyword... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking whether byte ordering is bigendian... no checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking for C compiler vendor... clang checking whether C compiler accepts ... yes checking whether C compiler accepts -msse2... yes checking whether C compiler accepts -msse4.1... yes checking whether C compiler accepts -mavx... yes checking whether C compiler accepts -mavx2... yes checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking whether clang-18 is Clang... yes checking whether pthreads work with "-pthread" and "-lpthread"... yes checking whether Clang needs flag to prevent "argument unused" warning when linking with -pthread... unknown checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking whether more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking for cstdint... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking for malloc.h... yes checking for int64_t... yes checking for uint64_t... yes checking size of size_t... 8 checking alignment of void*... 8 checking for gettimeofday... yes checking for clock_gettime... yes checking for ffs... yes checking for size_t... yes checking for working alloca.h... yes checking for alloca... yes checking for working posix_memalign... yes checking for snprintf... yes checking if g++ supports namespace std... yes checking whether snprintf is in std::... yes checking for log1p... yes checking whether log1p is in std::... no configure: creating ./config.status config.status: creating src/Makevars config.status: creating src/config.hpp config.status: creating src/dbarts/config.hpp config.status: creating src/misc/config.h config.status: creating src/external/config.h config.status: creating inst/include/dbarts/types.hpp config.status: creating src/include/misc/types.h ** libs using C compiler: ‘Debian clang version 18.1.4 (1)’ using C++ compiler: ‘Debian clang version 18.1.4 (1)’ make[1]: Entering directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src' clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c R_C_interface.cpp -o R_C_interface.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c R_interface.cpp -o R_interface.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c R_interface_common.cpp -o R_interface_common.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c R_interface_crossvalidate.cpp -o R_interface_crossvalidate.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c R_interface_rbart.cpp -o R_interface_rbart.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c R_interface_sampler.cpp -o R_interface_sampler.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c crossvalidate.cpp -o crossvalidate.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c guessNumCores.cpp -o guessNumCores.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../inst/include -Iinclude -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c makeModelMatrixFromDataFrame.c -o makeModelMatrixFromDataFrame.o make[2]: Entering directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/dbarts' clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c bartFit.cpp -o bartFit.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c binaryIO.cpp -o binaryIO.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c birthDeathRule.cpp -o birthDeathRule.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c changeRule.cpp -o changeRule.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c functions.cpp -o functions.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c likelihood.cpp -o likelihood.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c node.cpp -o node.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c parameterPrior.cpp -o parameterPrior.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c state.cpp -o state.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c swapRule.cpp -o swapRule.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c tree.cpp -o tree.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../../inst/include -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c treePrior.cpp -o treePrior.o ar rv ../dbarts.a bartFit.o binaryIO.o birthDeathRule.o changeRule.o functions.o likelihood.o node.o parameterPrior.o state.o swapRule.o tree.o treePrior.o ar: creating ../dbarts.a a - bartFit.o a - binaryIO.o a - birthDeathRule.o a - changeRule.o a - functions.o a - likelihood.o a - node.o a - parameterPrior.o a - state.o a - swapRule.o a - tree.o a - treePrior.o make[2]: Leaving directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/dbarts' make[2]: Entering directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/external' clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c io.c -o io.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c randomBase.c -o randomBase.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c randomNorm.c -o randomNorm.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c random.c -o random.o ar rv ../external.a io.o randomBase.o randomNorm.o random.o ar: creating ../external.a a - io.o a - randomBase.o a - randomNorm.o a - random.o make[2]: Leaving directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/external' make[2]: Entering directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/misc' clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -msse2 -c adaptiveRadixTree.c -o adaptiveRadixTree.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c binaryIO.c -o binaryIO.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c blockingThreadManager.c -o blockingThreadManager.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c hierarchicalThreadManager.c -o hierarchicalThreadManager.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c linearAlgebra.c -o linearAlgebra.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c moments.c -o moments.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c partition.c -o partition.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c simd.c -o simd.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c string.c -o string.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c thread.c -o thread.o echo clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c linearAlgebra_sse2.c -o linearAlgebra_sse2.c clang-18 -I/home/hornik/tmp/R.check/r-devel-clang/Work/build/include -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c linearAlgebra_sse2.c -o linearAlgebra_sse2.c echo clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c moments_sse2.c -o moments_sse2.o clang-18 -I/home/hornik/tmp/R.check/r-devel-clang/Work/build/include -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c moments_sse2.c -o moments_sse2.o echo clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c partition_sse2.c -o partition_sse2.o clang-18 -I/home/hornik/tmp/R.check/r-devel-clang/Work/build/include -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c partition_sse2.c -o partition_sse2.o echo clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c partition_sse4_1.c -o partition_sse4_1.o clang-18 -I/home/hornik/tmp/R.check/r-devel-clang/Work/build/include -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c partition_sse4_1.c -o partition_sse4_1.o echo clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c linearAlgebra_avx.c -o linearAlgebra_avx.c clang-18 -I/home/hornik/tmp/R.check/r-devel-clang/Work/build/include -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c linearAlgebra_avx.c -o linearAlgebra_avx.c echo clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c partition_avx2.c -o partition_avx2.o clang-18 -I/home/hornik/tmp/R.check/r-devel-clang/Work/build/include -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -fpic -c partition_avx2.c -o partition_avx2.o ar rv ../misc.a adaptiveRadixTree.o binaryIO.o blockingThreadManager.o hierarchicalThreadManager.o linearAlgebra.o moments.o partition.o simd.o string.o thread.o linearAlgebra_sse2.o moments_sse2.o partition_sse2.o partition_sse4_1.o linearAlgebra_avx.o partition_avx2.o ar: creating ../misc.a a - adaptiveRadixTree.o a - binaryIO.o a - blockingThreadManager.o a - hierarchicalThreadManager.o a - linearAlgebra.o a - moments.o a - partition.o a - simd.o a - string.o a - thread.o a - linearAlgebra_sse2.o a - moments_sse2.o a - partition_sse2.o a - partition_sse4_1.o a - linearAlgebra_avx.o a - partition_avx2.o make[2]: Leaving directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/misc' make[2]: Entering directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/rc' clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -g -O3 -Wall -pedantic -fpic -c bounds.c -o bounds.o clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I../include -pthread -I/usr/local/include -D_FORTIFY_SOURCE=3 -g -O3 -Wall -pedantic -fpic -c util.c -o util.o ar rv ../rc.a bounds.o util.o ar: creating ../rc.a a - bounds.o a - util.o make[2]: Leaving directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src/rc' clang++-18 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o dbarts.so R_C_interface.o R_interface.o R_interface_common.o R_interface_crossvalidate.o R_interface_rbart.o R_interface_sampler.o crossvalidate.o guessNumCores.o makeModelMatrixFromDataFrame.o dbarts.a external.a misc.a rc.a -pthread -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR make[1]: Leaving directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src' make[1]: Entering directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src' make[1]: Leaving directory '/tmp/Rtmp8U9FhL/R.INSTALL12da720486d89/dbarts/src' installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-dbarts/00new/dbarts/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 (dbarts)