davidgwyrick
commented
1 year ago Ok, i changed the GPU architecture to be AMPERE86 because supposedly lovelace (ADA89) is back compatible. but I think there is still issues with some of the ctests and python tests. For the python tests, it can't even read in kEDM.
`(kedm2) david.wyrick@robinson:~/Git/kEDM$ cmake -B build -S . -DKEDM_ENABLE_PYTHON=ON -DKEDM_ENABLE_GPU=ON -DKokkos_ARCH_AMPERE86=ON -DKEDM_ENABLE_EXECUTABLES=ON -- The CXX compiler identification is GNU 11.4.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Setting default Kokkos CXX standard to 17 -- The project name is: Kokkos -- Using internal gtest for testing -- Configured git information in /home/david.wyrick/Git/kEDM/build/generated/Kokkos_Version_Info.cpp -- Compiler Version: 11.7.64 -- kokkos_launch_compiler (/home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/bin/kokkos_launch_compiler) is enabled... -- Using -std=c++17 for C++17 standard as feature -- Built-in Execution Spaces: -- Device Parallel: Kokkos::Cuda -- Host Parallel: Kokkos::OpenMP -- Host Serial: NONE
-- Architectures: -- AMPERE86 -- Found CUDAToolkit: /home/david.wyrick/anaconda3/envs/kedm2/include (found version "11.7.64") -- Looking for C++ include pthread.h -- Looking for C++ include pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found TPLCUDA: TRUE -- Found TPLLIBDL: /usr/include -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Using internal desul_atomics copy -- Kokkos Devices: OPENMP;CUDA, Kokkos Backends: OPENMP;CUDA -- The C compiler identification is GNU 11.4.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Boost.Math: standalone mode ON -- Found CUDA: /home/david.wyrick/anaconda3/envs/kedm2 (found version "11.7") -- Found HDF5: /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libcrypto.so;/usr/lib/x86_64-linux-gnu/libcurl.so;/usr/lib/x86_64-linux-gnu/libpthread.a;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.a;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.7") -- Setting build type to 'RelWithDebInfo' as none was specified. -- pybind11 v2.9.2 -- Found PythonInterp: /home/david.wyrick/anaconda3/envs/kedm2/bin/python (found version "3.8.17") -- Found PythonLibs: /home/david.wyrick/anaconda3/envs/kedm2/lib/libpython3.8.so -- Performing Test HAS_FLTO -- Performing Test HAS_FLTO - Success -- kEDM build configuration: -- C++ Compiler: GNU 11.4.0 -- /usr/bin/c++ -- CPU backend: ON -- GPU backend: ON -- Executables: ON -- Python bindings: ON -- MPI: OFF -- Unit tests: ON -- LIKWID: OFF -- Scratch memory: ON -- SIMD primitives: ON -- Configuring done CMake Warning at CMakeLists.txt:89 (add_executable): Cannot generate a safe runtime search path for target edm-xmap because files in some directories may conflict with libraries in implicit directories:
runtime library [libgomp.so.1] in /usr/lib/gcc/x86_64-linux-gnu/11 may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libcrypto.so.3] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libz.so.1] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/libSome of these libraries may not be found correctly.
CMake Warning at CMakeLists.txt:93 (add_executable): Cannot generate a safe runtime search path for target knn-bench because files in some directories may conflict with libraries in implicit directories:
runtime library [libgomp.so.1] in /usr/lib/gcc/x86_64-linux-gnu/11 may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libcrypto.so.3] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libz.so.1] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/libSome of these libraries may not be found correctly.
CMake Warning at CMakeLists.txt:96 (add_executable): Cannot generate a safe runtime search path for target lookup-bench because files in some directories may conflict with libraries in implicit directories:
runtime library [libgomp.so.1] in /usr/lib/gcc/x86_64-linux-gnu/11 may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libcrypto.so.3] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libz.so.1] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/libSome of these libraries may not be found correctly.
CMake Warning at CMakeLists.txt:99 (add_executable): Cannot generate a safe runtime search path for target smap-bench because files in some directories may conflict with libraries in implicit directories:
runtime library [libgomp.so.1] in /usr/lib/gcc/x86_64-linux-gnu/11 may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libcrypto.so.3] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libz.so.1] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/libSome of these libraries may not be found correctly.
CMake Warning at src/thirdparty/pybind11/tools/pybind11Tools.cmake:165 (add_library): Cannot generate a safe runtime search path for target _kedm because files in some directories may conflict with libraries in implicit directories:
runtime library [libgomp.so.1] in /usr/lib/gcc/x86_64-linux-gnu/11 may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libcrypto.so.3] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libz.so.1] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/libSome of these libraries may not be found correctly. Call Stack (most recent call first): CMakeLists.txt:136 (pybind11_add_module)
CMake Warning at CMakeLists.txt:151 (add_executable): Cannot generate a safe runtime search path for target kedm-test because files in some directories may conflict with libraries in implicit directories:
runtime library [libgomp.so.1] in /usr/lib/gcc/x86_64-linux-gnu/11 may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libcrypto.so.3] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/lib
runtime library [libz.so.1] in /usr/lib/x86_64-linux-gnu may be hidden by files in:
/home/david.wyrick/anaconda3/envs/kedm2/libSome of these libraries may not be found correctly.
| -- Generating done -- Build files have been written to: /home/david.wyrick/Git/kEDM/build (kedm2) david.wyrick@robinson:~/Git/kEDM$ cmake --build build [ 1%] Building CXX object src/thirdparty/kokkos/simd/src/CMakeFiles/kokkossimd.dir/Kokkos_SIMD_dummy.cpp.o [ 3%] Linking CXX static library libkokkossimd.a [ 3%] Built target kokkossimd [ 5%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_CPUDiscovery.cpp.o [ 7%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_Command_Line_Parsing.cpp.o [ 8%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_Core.cpp.o [ 10%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_Error.cpp.o [ 12%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_ExecPolicy.cpp.o [ 14%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_HostBarrier.cpp.o [ 15%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_HostSpace.cpp.o [ 17%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_HostSpace_deepcopy.cpp.o [ 19%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_HostThreadTeam.cpp.o [ 21%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_MemoryPool.cpp.o [ 22%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_MemorySpace.cpp.o [ 24%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_Profiling.cpp.o /home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/core/src/impl/Kokkos_Profiling.cpp: In function ‘Kokkos::Tools::Impl::InitializationStatus Kokkos::Tools::Impl::parse_environment_variables(Kokkos::Tools::InitArguments&)’: /home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/core/src/impl/Kokkos_Profiling.cpp:179:81: warning: missing initializer for member ‘Kokkos::Tools::Impl::InitializationStatus::error_message’ [-Wmissing-field-initializers] 179 | return { | ^ /home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/core/src/impl/Kokkos_Profiling.cpp: In function ‘Kokkos::Tools::Impl::InitializationStatus Kokkos::Tools::Impl::initialize_tools_subsystem(const Kokkos::Tools::InitArguments&)’: /home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/core/src/impl/Kokkos_Profiling.cpp:195:65: warning: missing initializer for member ‘Kokkos::Tools::Impl::InitializationStatus::error_message’ [-Wmissing-field-initializers] 195 | return {InitializationStatus::InitializationResult::help_request}; | ^ /home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/core/src/impl/Kokkos_Profiling.cpp:201:60: warning: missing initializer for member ‘Kokkos::Tools::Impl::InitializationStatus::error_message’ [-Wmissing-field-initializers] 201 | return {InitializationStatus::InitializationResult::success}; | ^
[ 26%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_SharedAlloc.cpp.o
[ 28%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_Spinwait.cpp.o
[ 29%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_Stacktrace.cpp.o
[ 31%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/Kokkos_hwloc.cpp.o
[ 33%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/Cuda/Kokkos_CudaSpace.cpp.o
[ 35%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/Cuda/Kokkos_Cuda_Instance.cpp.o
[ 36%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/Cuda/Kokkos_Cuda_Locks.cpp.o
[ 38%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/Cuda/Kokkos_Cuda_Task.cpp.o
[ 40%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/OpenMP/Kokkos_OpenMP_Instance.cpp.o
[ 42%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir/OpenMP/Kokkos_OpenMP_Task.cpp.o
[ 43%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir///tpls/desul/src/Lock_Array_CUDA.cpp.o
[ 45%] Building CXX object src/thirdparty/kokkos/core/src/CMakeFiles/kokkoscore.dir///tpls/desul/src/Lock_Array_HIP.cpp.o
[ 47%] Linking CXX static library libkokkoscore.a
[ 47%] Built target kokkoscore
[ 49%] Building CXX object src/thirdparty/kokkos/containers/src/CMakeFiles/kokkoscontainers.dir/impl/Kokkos_UnorderedMap_impl.cpp.o
[ 50%] Linking CXX static library libkokkoscontainers.a
[ 50%] Built target kokkoscontainers
[ 52%] Building CXX object CMakeFiles/kedm.dir/src/ccm.cpp.o
/home/david.wyrick/Git/kEDM/src/ccm.cpp: In function ‘std::vector |
bool use_scratch = | ~~~ ^ [ 54%] Building CXX object CMakeFiles/kedm.dir/src/edim.cpp.o [ 56%] Building CXX object CMakeFiles/kedm.dir/src/io.cpp.o [ 57%] Building CXX object CMakeFiles/kedm.dir/src/simplex.cpp.o [ 59%] Building CXX object CMakeFiles/kedm.dir/src/xmap.cpp.o /home/david.wyrick/Git/kEDM/src/xmap.cpp:46: warning: ignoring ‘#pragma unroll ’ [-Wunknown-pragmas] 46 | for (int e = 0; e < E + 1; e++) { |
|---|
[ 61%] Building CXX object CMakeFiles/kedm.dir/src/knn.cpp.o [ 63%] Building CXX object CMakeFiles/kedm.dir/src/smap.cpp.o [ 64%] Building CXX object CMakeFiles/kedm.dir/src/stats.cpp.o [ 66%] Linking CXX static library libkedm.a [ 66%] Built target kedm [ 68%] Building CXX object CMakeFiles/edm-xmap.dir/src/xmap_run.cpp.o [ 70%] Linking CXX executable edm-xmap [ 70%] Built target edm-xmap [ 71%] Building CXX object CMakeFiles/knn-bench.dir/src/knn_bench.cpp.o [ 73%] Linking CXX executable knn-bench [ 73%] Built target knn-bench [ 75%] Building CXX object CMakeFiles/lookup-bench.dir/src/lookup_bench.cpp.o [ 77%] Linking CXX executable lookup-bench [ 77%] Built target lookup-bench [ 78%] Building CXX object CMakeFiles/smap-bench.dir/src/smap_bench.cpp.o [ 80%] Linking CXX executable smap-bench [ 80%] Built target smap-bench [ 82%] Building CXX object CMakeFiles/_kedm.dir/src/bindings.cpp.o [ 84%] Linking CXX shared module _kedm.cpython-38-x86_64-linux-gnu.so [ 84%] Built target _kedm [ 85%] Building CXX object CMakeFiles/kedm-test.dir/test/main.cpp.o [ 87%] Building CXX object CMakeFiles/kedm-test.dir/test/ccm_test.cpp.o [ 89%] Building CXX object CMakeFiles/kedm-test.dir/test/knn_test.cpp.o [ 91%] Building CXX object CMakeFiles/kedm-test.dir/test/simplex_test.cpp.o [ 92%] Building CXX object CMakeFiles/kedm-test.dir/test/smap_test.cpp.o [ 94%] Building CXX object CMakeFiles/kedm-test.dir/test/stats_test.cpp.o [ 96%] Building CXX object CMakeFiles/kedm-test.dir/test/xmap_one_to_one_test.cpp.o [ 98%] Building CXX object CMakeFiles/kedm-test.dir/test/xmap_all_to_all_test.cpp.o [100%] Linking CXX executable kedm-test Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. Kokkos::OpenMP::initialize WARNING: OMP_PROC_BIND environment variable not set In general, for best performance with OpenMP 4.0 or better set OMP_PROC_BIND=spread and OMP_PLACES=threads For best performance with OpenMP 3.1 set OMP_PROC_BIND=true For unit testing set OMP_PROC_BIND=false
Kokkos::Cuda::initialize WARNING: running kernels compiled for compute capability 8.6 on device with compute capability 8.9 , this will likely reduce potential performance. [100%] Built target kedm-test (kedm2) david.wyrick@robinson:~/Git/kEDM$ ctest build/ Test project /home/david.wyrick/Git/kEDM No tests were found!!! (kedm2) david.wyrick@robinson:~/Git/kEDM$ cd build/ (kedm2) david.wyrick@robinson:~/Git/kEDM/build$ ctest Test project /home/david.wyrick/Git/kEDM/build Start 1: Compute Convergent Cross Mapping 1/19 Test #1: Compute Convergent Cross Mapping ......................... Passed 0.22 sec Start 2: Partially sort kNN LUT 2/19 Test #2: Partially sort kNN LUT ................................... Passed 0.12 sec Start 3: Compute kNN table for E=2 3/19 Test #3: Compute kNN table for E=2 ................................ Passed 0.11 sec Start 4: Compute kNN table for E=3 4/19 Test #4: Compute kNN table for E=3 ................................ Passed 0.13 sec Start 5: Compute kNN table for E=4 5/19 Test #5: Compute kNN table for E=4 ................................ Passed 0.12 sec Start 6: Compute kNN table for E=5 6/19 Test #6: Compute kNN table for E=5 ................................ Passed 0.13 sec Start 7: Compute simplex projection for E=2 7/19 Test #7: Compute simplex projection for E=2 ....................... Passed 0.10 sec Start 8: Compute simplex projection for E=3 8/19 Test #8: Compute simplex projection for E=3 ....................... Passed 0.12 sec Start 9: Compute simplex projection for E=4 9/19 Test #9: Compute simplex projection for E=4 ....................... Passed 0.11 sec Start 10: Compute simplex projection for E=5 10/19 Test #10: Compute simplex projection for E=5 ....................... Passed 0.14 sec Start 11: Compute multivariate simplex projection for E=3 11/19 Test #11: Compute multivariate simplex projection for E=3 .......... Passed 0.11 sec Start 12: Compute optimal embedding dimension 12/19 Test #12: Compute optimal embedding dimension ...................... Passed 0.12 sec Start 13: Compute S-Map projections 13/19 Test #13: Compute S-Map projections ................................Subprocess aborted***Exception: 0.67 sec Start 14: Compute Pearson's correlation coefficient, MAE and MSE 14/19 Test #14: Compute Pearson's correlation coefficient, MAE and MSE ... Passed 0.13 sec Start 15: Compute all-to-all cross mappings 15/19 Test #15: Compute all-to-all cross mappings ........................ Passed 0.14 sec Start 16: Compute one-to-one cross mapping for E=2 16/19 Test #16: Compute one-to-one cross mapping for E=2 ................. Passed 0.11 sec Start 17: Compute one-to-one cross mapping for E=3 17/19 Test #17: Compute one-to-one cross mapping for E=3 ................. Passed 0.11 sec Start 18: Compute one-to-one cross mapping for E=4 18/19 Test #18: Compute one-to-one cross mapping for E=4 ................. Passed 0.12 sec Start 19: Compute one-to-one cross mapping for E=5 19/19 Test #19: Compute one-to-one cross mapping for E=5 ................. Passed 0.10 sec
95% tests passed, 1 tests failed out of 19
Total Test time (real) = 2.92 sec
The following tests FAILED: 13 - Compute S-Map projections (Subprocess aborted) Errors while running CTest Output from these tests are in: /home/david.wyrick/Git/kEDM/build/Testing/Temporary/LastTest.log Use "--rerun-failed --output-on-failure" to re-run the failed cases verbosely. (kedm2) david.wyrick@robinson:~/Git/kEDM/build$ conda install pytest Collecting package metadata (current_repodata.json): done Solving environment: done
Package Plan
environment location: /home/david.wyrick/anaconda3/envs/kedm2
added / updated specs:
- pytest
The following NEW packages will be INSTALLED:
exceptiongroup pkgs/main/linux-64::exceptiongroup-1.0.4-py38h06a4308_0 iniconfig pkgs/main/noarch::iniconfig-1.1.1-pyhd3eb1b0_0 pluggy pkgs/main/linux-64::pluggy-1.0.0-py38h06a4308_1 pytest pkgs/main/linux-64::pytest-7.4.0-py38h06a4308_0
Proceed ([y]/n)? y
Downloading and Extracting Packages
Preparing transaction: done Verifying transaction: done Executing transaction: done (kedm2) david.wyrick@robinson:~/Git/kEDM/build$ cd .. (kedm2) david.wyrick@robinson:~/Git/kEDM$ pytest python/tests/ ======================================================= test session starts ======================================================== platform linux -- Python 3.8.17, pytest-7.4.0, pluggy-1.0.0 rootdir: /home/david.wyrick/Git/kEDM plugins: anyio-3.5.0 collected 0 items / 4 errors
============================================================== ERRORS ==============================================================
____ ERROR collecting python/tests/testccm.py ____
ImportError while importing test module '/home/david.wyrick/Git/kEDM/python/tests/test_ccm.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
../../anaconda3/envs/kedm2/lib/python3.8/importlib/init.py:127: in import_module
return _bootstrap._gcd_import(name[level:], package, level)
python/tests/test_ccm.py:1: in
In [1]: import kedm
ModuleNotFoundError Traceback (most recent call last) Cell In[1], line 1 ----> 1 import kedm
ModuleNotFoundError: No module named 'kedm'`
keichi
Hello, I seem to be getting a compile error during installation related to Cuda. My workstation has a GeForce RTX 4090 with cuda 12.1 installed. I first created a conda environment, which I installed the cuda toolbox. It fails to find the correct nvidia GPU architecture even though I specified the correct one (I think). any ideas? Thank you in advance.
(kedm) david.wyrick@robinson:~/Git/kEDM$ cmake -B build -S . -DKEDM_ENABLE_PYTHON=ON -DKEDM_ENABLE_GPU=ON -DKokkos_ARCH_ADA89=ON -DKEDM_ENABLE_EXECUTABLES=ON -- Setting default Kokkos CXX standard to 17 -- The project name is: Kokkos -- Using internal gtest for testing -- Compiler Version: 12.2.128 -- kokkos_launch_compiler (/home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/bin/kokkos_launch_compiler) is enabled... -- Using -std=c++17 for C++17 standard as feature -- CUDA auto-detection of architecture failed with /usr/bin/c++. Enabling CUDA language ONLY to auto-detect architecture... CMake Error at src/thirdparty/kokkos/cmake/kokkos_arch.cmake:801 (MESSAGE): CUDA enabled but no NVIDIA GPU architecture currently enabled and auto-detection failed. Please give one -DKokkosARCH{..}=ON' to enable an NVIDIA GPU architecture.
You can yourself try to compile /home/david.wyrick/Git/kEDM/src/thirdparty/kokkos/cmake/compile_tests/cuda_compute_capability.cc and run the executable. If you are cross-compiling, you should try to do this on a compute node. Call Stack (most recent call first): src/thirdparty/kokkos/cmake/kokkos_tribits.cmake:244 (INCLUDE) src/thirdparty/kokkos/CMakeLists.txt:213 (KOKKOS_SETUP_BUILD_ENVIRONMENT)
-- Built-in Execution Spaces: -- Device Parallel: Kokkos::Cuda -- Host Parallel: Kokkos::OpenMP -- Host Serial: NONE
-- Architectures: -- Using internal desul_atomics copy -- Kokkos Devices: OPENMP;CUDA, Kokkos Backends: OPENMP;CUDA -- Boost.Math: standalone mode ON -- pybind11 v2.9.2 -- kEDM build configuration: -- C++ Compiler: GNU 11.4.0 -- /usr/bin/c++ -- CPU backend: ON -- GPU backend: ON -- Executables: ON -- Python bindings: ON -- MPI: OFF -- Unit tests: ON -- LIKWID: OFF -- Scratch memory: ON -- SIMD primitives: ON -- Configuring incomplete, errors occurred! See also "/home/david.wyrick/Git/kEDM/build/CMakeFiles/CMakeOutput.log".