<div dir="ltr"><div>I am getting this error:</div><div><br></div>09:22 adams/landau-mass-opt= /gpfs/alpine/csc314/scratch/adams/petsc/src/mat/tutorials$ make PETSC_DIR=/gpfs/alpine/csc314/scratch/adams/petsc PETSC_ARCH=arch-summit-opt-gnu-kokkos-notpl-cuda10 ex5k.kokkos<br>mpicxx -fPIC -g -DLANDAU_DIM=2 -DLANDAU_MAX_SPECIES=10 -DPETSC_HAVE_CUDA_ATOMIC -DLANDAU_MAX_Q=4 -O0   -fPIC -g -DLANDAU_DIM=2 -DLANDAU_MAX_SPECIES=10 -DPETSC_HAVE_CUDA_ATOMIC -DLANDAU_MAX_Q=4 -O0   -fPIC    -I/gpfs/alpine/csc314/scratch/adams/petsc/include -I/gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include -I/sw/summit/cuda/10.1.243/include     ex5k.kokkos.cxx  -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/lib -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/lib -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/lib -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/lib -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lpetsc -lkokkoskernels -lkokkoscontainers -lkokkoscore -lp4est -lsc -lblas -llapack -ltriangle -lm -lz -lcudart -lcufft -lcublas -lcusparse -lcusolver -lcurand -lstdc++ -ldl -o ex5k.kokkos<br>In file included from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/KokkosCore_Config_SetupBackend.hpp:47:0,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/Kokkos_Macros.hpp:109,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/Kokkos_Core_fwd.hpp:52,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/Kokkos_Core.hpp:51,<br>                 from ex5k.kokkos.cxx:10:<br>/gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/setup/Kokkos_Setup_Cuda.hpp:54:2: error: #error "KOKKOS_ENABLE_CUDA defined but the compiler is not defining the __CUDACC__ macro as expected"<br> #error \<br>  ^~~~~<br>In file included from /sw/summit/cuda/10.1.243/include/crt/common_functions.h:267:0,<br>                 from /sw/summit/cuda/10.1.243/include/cuda_runtime.h:115,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/setup/Kokkos_Setup_Cuda.hpp:68,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/KokkosCore_Config_SetupBackend.hpp:47,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/Kokkos_Macros.hpp:109,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/Kokkos_Core_fwd.hpp:52,<br>                 from /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-kokkos-notpl-cuda10/include/Kokkos_Core.hpp:51,<br>                 from ex5k.kokkos.cxx:10:<br>/sw/summit/cuda/10.1.243/include/crt/math_functions.h:8944:72: error: 'int std::isnan(double)' conflicts with a previous declaration<br> __DEVICE_FUNCTIONS_DECL__ __cudart_builtin__ int isnan(double x) throw();<br>                                                                        ^<br><div>Here is my config file:</div><div><br></div><div>#!/usr/bin/env python<br>#  -lnvToolsExt<br><br>if __name__ == '__main__':<br>  import sys<br>  import os<br>  sys.path.insert(0, os.path.abspath('config'))<br>  import configure<br>  configure_options = [<br>    '--with-fc=0',<br>    '--CFLAGS=-fPIC -g -DLANDAU_DIM=2 -DLANDAU_MAX_SPECIES=10 -DPETSC_HAVE_CUDA_ATOMIC -DLANDAU_MAX_Q=4',<br>    '--CXXFLAGS=-fPIC -g -DLANDAU_DIM=2 -DLANDAU_MAX_SPECIES=10 -DPETSC_HAVE_CUDA_ATOMIC -DLANDAU_MAX_Q=4',<br>    '--COPTFLAGS=-O0',<br>    '--CXXOPTFLAGS=-O0',<br>    '--CUDAOPTFLAGS=-O0',<br>#    'LIBS= -L'+os.environ['CUDAPATH']+'/lib64 -lnvToolsExt',<br>    '--CUDAFLAGS=-Xcompiler -rdynamic -lineinfo -DLANDAU_DIM=2 -DLANDAU_MAX_SPECIES=10 -DPETSC_HAVE_CUDA_ATOMIC -DLANDAU_MAX_Q=4',<br>    '--with-ssl=0',<br>    '--with-batch=0',<br>    '--with-cxx=mpicxx',<br>    '--with-mpiexec=jsrun -g1 ',<br>    '--with-openmp=0',<br>#    '--with-threadsafety=1',<br>#    '--with-log=0',<br>    '--with-cuda=1',<br>    '--with-cuda-gencodearch=70',<br>    '--with-cudac=nvcc',<br>    '--download-p4est=1',<br>    '--download-zlib',<br>#    '--download-hdf5=1',<br>#    '--download-metis',<br>#    '--download-superlu_dist',<br>#    '--download-superlu_dist-commit=HEAD',<br>#    '--download-hypre-configure-arguments=HYPRE_CUDA_SM=70',<br>    #'--with-hwloc=0',<br>#    '--download-parmetis',<br>    #'--download-hypre',<br>    '--download-triangle',<br>    #'--download-amgx',<br>    #'--download-fblaslapack',<br>    '--with-blaslapack-lib=-L' + os.environ['OLCF_NETLIB_LAPACK_ROOT'] + '/lib64 -lblas -llapack',<br>    #'--download-openblas',<br>    '--with-cc=mpicc',<br>    #'--with-fc=mpif90',<br>    '--with-shared-libraries=1',<br>    #  '--known-mpi-shared-libraries=1',<br>    '--with-x=0',<br>    '--with-64-bit-indices=0',<br>    '--with-debugging=1',<br>    '--download-kokkos',<br>    '--with-ctable=0',<br>    '--with-make-np=8',<br>    '--download-kokkos-kernels',<br>#    '--with-kokkos-cuda-arch=VOLTA70',<br>    '--with-kokkos-kernels-tpl=0',<br>    '--download-kokkos-cmake-arguments=-DKokkos_ENABLE_AGGRESSIVE_VECTORIZATION=ON -DKokkos_ARCH_POWER9=ON',<br>#    '--download-kokkos-commit=origin/develop',<br>#    '--download-kokkos-kernels-commit=origin/develop',<br>    'PETSC_ARCH=arch-summit-opt-gnu-kokkos-notpl-cuda10',<br>  ]<br>  configure.petsc_configure(configure_options)<br><br>~<br>~<br>~<br>~<br>~<br>~<br>~<br></div></div>