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On windows R_ARCH_BIN +# is set, so this should work everywhere. +RBIN="${R_HOME}/bin${R_ARCH_BIN}/R" +"$RBIN" --vanilla --slave -f tools/configure.R diff --git a/configure.ac b/configure.ac deleted file mode 100644 index afb060bb..00000000 --- a/configure.ac +++ /dev/null @@ -1,56 +0,0 @@ -# Process this file with autoconf to produce a configure script. -AC_INIT([Cyclops],[3.3],[msuchard@ucla.edu]) - -# find R home and set CC/CFLAGS -: ${R_HOME=`R RHOME`} -if test -z "${R_HOME}"; then - echo "could not determine R_HOME" - exit 1 -fi - -# platform check -RHOST=`"${R_HOME}/bin/Rscript" -e 'cat(Sys.info()[["sysname"]])'` - -#################### CUDA Toolkit #################### - -CUDA_LIBS="" -CUDA_CPPFLAGS="" -DEVICE="" - -AC_MSG_CHECKING("checking environment variable CUDA_HOME") -if test -z "${CUDA_HOME}"; then - CUDA_HOME=`find /usr/local/ -maxdepth 1 -name "cuda"` -fi - -if test -z "${CUDA_HOME}"; then - AC_MSG_NOTICE("no CUDA installation found") -else - AC_MSG_NOTICE("using CUDA_HOME=${CUDA_HOME}") - DEVICE="_cuda" - AC_ARG_WITH([arch], - [AS_HELP_STRING([--with-arch=SM],[compute capability of the target device @<:@sm_70@:>@])], - [ARCH="$withval"], [ARCH=sm_70]) - AC_MSG_RESULT([setting compute capability of the target device to ${ARCH}]) - NVCC="${CUDA_HOME}/bin/nvcc -arch=${ARCH}" - AC_SUBST(NVCC) - - AC_MSG_CHECKING("whether this is the 64 bit linux version of CUDA") - AC_CHECK_FILE([${CUDA_HOME}/lib64/libcudart.so], [BIT64="yes"]) - if test -z "${BIT64}"; then - AC_MSG_RESULT("no -- using ${CUDA_HOME}/lib for CUDA libs") - cu_libdir="${CUDA_HOME}/lib" - else - AC_MSG_RESULT("yes -- using ${CUDA_HOME}/lib64 for CUDA libs") - cu_libdir="${CUDA_HOME}/lib64" - fi - CUDA_LIBS="${CUDA_LIBS} -L${cu_libdir} -lcudart" - CUDA_CPPFLAGS="${CUDA_CPPFLAGS} -DHAVE_CUDA -I${CUDA_HOME}/include -I${cu_libdir} -pthread -rdynamic" -fi - -AC_SUBST(DEVICE) -AC_SUBST(CUDA_HOME) -AC_SUBST(CUDA_LIBS) -AC_SUBST(CUDA_CPPFLAGS) - -AC_CONFIG_FILES([src/Makevars]) -AC_OUTPUT diff --git a/src/Makevars.in b/src/Makevars.in index a36bbfc4..ca6ccafa 100644 --- a/src/Makevars.in +++ b/src/Makevars.in @@ -1,12 +1,5 @@ -CUDA_HOME = @CUDA_HOME@ - -DEVICE = @DEVICE@ - -CUB_PATH = $(CUDA_HOME)/include # CUB is included since CUDA Toolkit 11.0 -#CUB_PATH = /home/jianxiao/cub_1.8.0/cub - ## Use the R_HOME indirection to support installations of multiple R version -PKG_LIBS = `$(R_HOME)/bin/Rscript -e "Rcpp:::LdFlags()"` @CUDA_LIBS@ +PKG_LIBS = `$(R_HOME)/bin/Rscript -e "Rcpp:::LdFlags()"` ## As an alternative, one can also add this code in a file 'configure' ## @@ -31,13 +24,11 @@ PKG_LIBS = `$(R_HOME)/bin/Rscript -e "Rcpp:::LdFlags()"` @CUDA_LIBS@ ## done by a number of packages, but recommended only for more advanced users ## comfortable with autoconf and its related tools. -NVCC = @NVCC@ - CPICFLAGS = -fpic PKG_CXXFLAGS = -g1 -PKG_CPPFLAGS = -I. -Icyclops -DR_BUILD -DDOUBLE_PRECISION @CUDA_CPPFLAGS@ +PKG_CPPFLAGS = -I. -Icyclops -DR_BUILD -DDOUBLE_PRECISION OBJECTS.cyclops = \ cyclops/CcdInterface.o \ @@ -66,14 +57,8 @@ OBJECTS.priors = \ OBJECTS.io = \ cyclops/io/InputReader.o -OBJECTS_engine = cyclops/engine/AbstractModelSpecifics.o -OBJECTS_engine_cuda = \ - cyclops/engine/AbstractModelSpecifics.o \ - cyclops/engine/CudaKernel.o \ - cyclops/engine/CudaDetail.o - -OBJECTS.engine = $(OBJECTS_engine$(strip $(DEVICE))) - +OBJECTS.engine = \ + cyclops/engine/AbstractModelSpecifics.o OBJECTS.utils = \ utils/HParSearch.o @@ -93,13 +78,3 @@ OBJECTS = $(OBJECTS.cyclops) $(OBJECTS.drivers) \ $(OBJECTS.engine) $(OBJECTS.utils) \ $(OBJECTS.threads) $(OBJECTS.R) \ $(OBJECTS.priors) $(OBJECTS.io) - -all: $(OBJECTS) - -%.o: %.cu - $(NVCC) --default-stream per-thread -c -Xcompiler "$(CPICFLAGS) $(CPPFLAGS) -c" -I$(CUB_PATH) $(R_PATH_LINKER) $^ -o $@ - -clean: - rm -rf *o - -.PHONY: all clean diff --git a/tools/configure.R b/tools/configure.R index 4b4222e9..11268df3 100644 --- a/tools/configure.R +++ b/tools/configure.R @@ -21,6 +21,48 @@ if (getRversion() < "4.2") { # Windoz } } + +#################### CUDA Toolkit #################### + +cuda_home <- system2(command = "find", args = c("/usr/local/", "-maxdepth", "1" ,"-name", "cuda"), stdout = TRUE) +if (length(cuda_home)==0) { + message("no CUDA installation found") +} else { + message(paste0("using CUDA_HOME=", cuda_home)) + nvcc <- c(paste0(cuda_home, "/bin/nvcc -arch=sm_70")) # TODO remove hardcoding of ARCH + cub_path <- paste0(cuda_home ,"/include") # CUB is included since CUDA Toolkit 11.0 + + # whether this is the 64 bit linux version of CUDA + cu_libdir <- system2(command = "find", args = c(paste0(cuda_home ,"/lib64")), stdout = TRUE) + if (length(cu_libdir) == 0) { + cu_libdir <- paste0(cuda_home ,"/lib") + } + + cuda_libs <- paste0("-L", cu_libdir, " -lcudart") + cuda_cppflags <-paste0("-DHAVE_CUDA -I", cuda_home, "/include -I", cu_libdir, " -pthread -rdynamic") + + txt <- c(paste0("CUDA_HOME =", cuda_home), + paste0("CUB_PATH =", cub_path), + paste0("NVCC =", nvcc), + paste0("CPICFLAGS = -fpic"), # TODO + txt) + txt[grep("^PKG_LIBS", txt)] <- paste(txt[grep("^PKG_LIBS", txt)], cuda_libs) + txt[grep("^PKG_CPPFLAGS", txt)] <- paste(txt[grep("^PKG_CPPFLAGS", txt)], cuda_cppflags) + engine_idx <- grep("^OBJECTS.engine =", txt) + txt[engine_idx+1] <- paste(txt[engine_idx+1], + "cyclops/engine/CudaKernel.o", + "cyclops/engine/CudaDetail.o") + txt <- c(txt, + 'all: $(OBJECTS)', + '%.o: %.cu', + paste0('\t', nvcc,' --default-stream per-thread -c -Xcompiler "$(CPICFLAGS) $(CPPFLAGS) -c" -I$(CUB_PATH) $(R_PATH_LINKER) $^ -o $@'), + 'clean:', + '\trm -rf *o', + '.PHONY: all clean') +} + +###################################################### + if (.Platform$OS.type == "unix") { cat(txt, file = makevars_out, sep = "\n") } else {