[NEST Users] Re: Issues with make under OSX

Hi Benjamin, This seems to be a deeper problem on OSX, see https://stackoverflow.com/questions/58144137/gcc-missing-headers-on-macos10… Interestingly, it works for me on Mojave. The quick-fix would be to build NEST with MPI but without OpenMP using the Clang compiler. With llvm and libomp from brew installed, the following also works for me cmake -E env LDFLAGS="-L/usr/local/opt/llvm/lib -Wl,-rpath,/usr/local/opt/llvm/lib" \ cmake -DCMAKE_INSTALL_PREFIX:PATH=$PWD/install \ -DCMAKE_C_COMPILER=/usr/local/opt/llvm/bin/clang \ -DCMAKE_CXX_COMPILER=/usr/local/opt/llvm/bin/clang++ \       -Dwith-mpi=ON ../src This builds NEST using the Clang compiler from llvm with OpenMP and MPI support. The only problem is that some Python tests crash, complaining about two different OpenMP libraries imported (libomp and libiomp5, where the latter comes from Anaconda's MKL library). One can (with a certain risk of problems) set KMP_DUPLICATE_LIB_OK=TRUE which will make macOS ignore the duplicate libraries. Tests then pass, but behavior may be unpredictable. Alternatively, one can create a Conda environment without MKL as describe on StackOverflow (https://stackoverflow.com/questions/38345519/how-to-install-scipy-without-m…). I haven't tested this yet. I also tried compiling with the Apple Clang, configuring as cmake -DCMAKE_INSTALL_PREFIX:PATH=$PWD/install \    -DOpenMP_CXX_FLAGS="-Xpreprocessor -fopenmp" -DOpenMP_CXX_LIB_NAMES="omp" \    -DOpenMP_C_FLAGS="-Xpreprocessor -fopenmp" -DOpenMP_C_LIB_NAMES="omp" \  -DOpenMP_omp_LIBRARY=/usr/local/lib/libomp.dylib \ -Dwith-mpi=ON ../src based on https://iscinumpy.gitlab.io/post/omp-on-high-sierra/, but this failed when linking, since the library information probably is not used properly by our CMake script. Best, Hans Ekkehard -- Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section Faculty of Science and Technology Norwegian Universityof Life Sciences PO Box 5003, 1432Aas, Norway Phone +47 6723 1560 Emailhans.ekkehard.plesser(a)nmbu.no Homehttp://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org