Linux building issue

[ 3%] Creating directories for 'netgen_project' [ 7%] Creating directories for 'suitesparse' [ 11%] Performing download step (git clone) for 'suitesparse' [ 15%] No download step for 'netgen_project' [ 19%] No patch step for 'netgen_project' -- suitesparse download command succeeded. See also /home/user/ngsuite/ngsolve-build/umfpack/src/suitesparse-stamp/suitesparse-download-*.log [ 23%] No update step for 'netgen_project' [ 26%] No update step for 'suitesparse' [ 34%] No configure step for 'netgen_project' [ 34%] No patch step for 'suitesparse' [ 42%] Performing configure step for 'suitesparse' [ 42%] Performing build step for 'netgen_project' [ 10%] Performing check_submodules1 step for 'netgen' [ 42%] Built target check_submodules_start -- Could NOT find LAPACK (missing: LAPACK_DIR) CMake Warning (dev) at CMakeLists.txt:210 (SET): implicitly converting 'FILE' to 'STRING' type. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:211 (SET): implicitly converting 'FILE' to 'STRING' type. This warning is for project developers. Use -Wno-dev to suppress it. [ 20%] Performing build step for 'netgen' [ 0%] Building CXX object libsrc/core/CMakeFiles/ngcore.dir/localheap.cpp.o [ 0%] Building CXX object libsrc/core/CMakeFiles/ngcore.dir/taskmanager.cpp.o [ 2%] Built target togl [ 3%] Building CXX object libsrc/core/CMakeFiles/ngcore.dir/utils.cpp.o -- Configuring done -- Generating done -- Build files have been written to: /home/user/ngsuite/ngsolve-build/umfpack/src/suitesparse-build [ 46%] Performing build step for 'suitesparse' In file included from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/taskmanager.hpp:16:0, from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/localheap.cpp:11: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp: In function ‘void ngcore::QuickSort(ngcore::FlatArray<TELEM>, TLESS)’: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1290:5: error: ‘ptrdiff_t’ was not declared in this scope ptrdiff_t i = 0; ^ /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1290:5: note: suggested alternatives: In file included from /usr/include/c++/5/exception:37:0, from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/localheap.cpp:7: /usr/include/x86_64-linux-gnu/c++/5/bits/c++config.h:197:28: note: ‘std::ptrdiff_t’ typedef __PTRDIFF_TYPE__ ptrdiff_t; ^ /usr/include/x86_64-linux-gnu/c++/5/bits/c++config.h:197:28: note: ‘std::ptrdiff_t’ In file included from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/taskmanager.hpp:16:0, from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/localheap.cpp:11: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1291:15: error: expected ‘;’ before ‘j’ ptrdiff_t j = data.Size()-1; ^ /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1293:23: error: ‘i’ was not declared in this scope T midval = data[ (i+j)/2 ]; ^ /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1293:25: error: ‘j’ was not declared in this scope T midval = data[ (i+j)/2 ]; ^ /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp: In function ‘void ngcore::QuickSortI(ngcore::FlatArray<TELEM>, ngcore::FlatArray<int>, TLESS)’: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1343:5: error: ‘ptrdiff_t’ was not declared in this scope ptrdiff_t i = 0; ^ /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1343:5: note: suggested alternatives: In file included from /usr/include/c++/5/exception:37:0, from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/localheap.cpp:7: /usr/include/x86_64-linux-gnu/c++/5/bits/c++config.h:197:28: note: ‘std::ptrdiff_t’ typedef __PTRDIFF_TYPE__ ptrdiff_t; ^ /usr/include/x86_64-linux-gnu/c++/5/bits/c++config.h:197:28: note: ‘std::ptrdiff_t’ In file included from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/taskmanager.hpp:16:0, from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/localheap.cpp:11: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1344:15: error: expected ‘;’ before ‘j’ ptrdiff_t j = index.Size()-1; ^ /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1346:26: error: ‘i’ was not declared in this scope int midval = index[ (i+j)/2 ]; ^ /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/array.hpp:1346:28: error: ‘j’ was not declared in this scope int midval = index[ (i+j)/2 ]; ^ In file included from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/localheap.cpp:11:0: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/taskmanager.hpp: At global scope: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/taskmanager.hpp:395:24: warning: requested alignment 4096 is larger than 256 [-Wattributes] class alignas(4096) AtomicRange : public AlignedAlloc<AtomicRange> ^ In file included from /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/taskmanager.cpp:16:0: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/libsrc/core/taskmanager.hpp:395:24: warning: requested alignment 4096 is larger than 256 [-Wattributes] class alignas(4096) AtomicRange : public AlignedAlloc<AtomicRange> ^ libsrc/core/CMakeFiles/ngcore.dir/build.make:75: recipe for target 'libsrc/core/CMakeFiles/ngcore.dir/localheap.cpp.o' failed make[8]: *** [libsrc/core/CMakeFiles/ngcore.dir/localheap.cpp.o] Error 1 make[8]: *** Waiting for unfinished jobs.... -- suitesparse build command succeeded. See also /home/user/ngsuite/ngsolve-build/umfpack/src/suitesparse-stamp/suitesparse-build-*.log [ 50%] Performing install step for 'suitesparse' -- suitesparse install command succeeded. See also /home/user/ngsuite/ngsolve-build/umfpack/src/suitesparse-stamp/suitesparse-install-*.log [ 53%] Completed 'suitesparse' [ 53%] Built target suitesparse CMakeFiles/Makefile2:1058: recipe for target 'libsrc/core/CMakeFiles/ngcore.dir/all' failed make[7]: *** [libsrc/core/CMakeFiles/ngcore.dir/all] Error 2 Makefile:162: recipe for target 'all' failed make[6]: *** [all] Error 2 CMakeFiles/netgen.dir/build.make:115: recipe for target 'dependencies/src/netgen-stamp/netgen-build' failed make[5]: *** [dependencies/src/netgen-stamp/netgen-build] Error 2 CMakeFiles/Makefile2:77: recipe for target 'CMakeFiles/netgen.dir/all' failed make[4]: *** [CMakeFiles/netgen.dir/all] Error 2 Makefile:129: recipe for target 'all' failed make[3]: *** [all] Error 2 CMakeFiles/netgen_project.dir/build.make:111: recipe for target 'dependencies/Stamp/netgen_project/netgen_project-build' failed make[2]: *** [dependencies/Stamp/netgen_project/netgen_project-build] Error 2 CMakeFiles/Makefile2:113: recipe for target 'CMakeFiles/netgen_project.dir/all' failed make[1]: *** [CMakeFiles/netgen_project.dir/all] Error 2 Makefile:151: recipe for target 'all' failed make: *** [all] Error 2

➜ intro netgen navierstokes.py NETGEN-6.2-dev Developed by Joachim Schoeberl at 2010-xxxx Vienna University of Technology 2006-2010 RWTH Aachen University 1996-2006 Johannes Kepler University Linz optfile ./ng.opt does not exist - using default values togl-version : 2 loading ngsolve library NGSolve-6.2.1905-166-g03a9230 Using Lapack Including sparse direct solver UMFPACK Running parallel using 8 thread(s) Traceback (most recent call last): File "<string>", line 1, in <module> ImportError: No module named 'ngsolve' (should) load python file 'navierstokes.py' Traceback (most recent call last): File "<string>", line 1, in <module> ImportError: No module named 'ngsolve' Traceback (most recent call last): Traceback (most recent call last): File "<string>", line 1, in <module> File "<string>", line 1, in <module> ImportError: No module named 'ngsolve' Finished executing navierstokes.py ImportError: No module named 'netgen' Thank you for using NGSolve

-DMKL_ROOT=${MKLROOT} -DUSE_MKL=ON

NGSolve/inst/lib64/python3.6/site-packages

➜ ngsolve-build cmake -DCMAKE_INSTALL_PREFIX=${BASEDIR}/ngsolve-install -DMKL_ROOT=${MKLROOT} -DUSE_MKL=ON ${BASEDIR}/ngsolve-src -- Build Netgen from git submodule Configure Netgen from submodule... Checking for write permissions in install directory... Checking for write permissions in install directory... -- Found Pybind11: /home/user/ngsuite/ngsolve-src/external_dependencies/netgen/external_dependencies/pybind11/include -- Configuring done -- Generating done -- Build files have been written to: /home/user/ngsuite/ngsolve-build/netgen CMake Warning (dev) at cmake/SuperBuild.cmake:129 (find_package): Policy CMP0074 is not set: find_package uses <PackageName>_ROOT variables. Run "cmake --help-policy CMP0074" for policy details. Use the cmake_policy command to set the policy and suppress this warning. CMake variable MKL_ROOT is set to: /home/user/intel For compatibility, CMake is ignoring the variable. Call Stack (most recent call first): CMakeLists.txt:61 (include) This warning is for project developers. Use -Wno-dev to suppress it. CMake Error at /usr/local/share/cmake-3.15/Modules/FindPackageHandleStandardArgs.cmake:137 (message): Could NOT find MKL (missing: MKL_INCLUDE_DIR MKL_LIBRARY MKL_MINIMAL_LIBRARY) Call Stack (most recent call first): /usr/local/share/cmake-3.15/Modules/FindPackageHandleStandardArgs.cmake:378 (_FPHSA_FAILURE_MESSAGE) cmake/cmake_modules/FindMKL.cmake:151 (find_package_handle_standard_args) cmake/SuperBuild.cmake:129 (find_package) CMakeLists.txt:61 (include) -- Configuring incomplete, errors occurred! See also "/home/user/ngsuite/ngsolve-build/CMakeFiles/CMakeOutput.log". See also "/home/user/ngsuite/ngsolve-build/CMakeFiles/CMakeError.log".