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Install with STRUMPACK fails

Open benzwick opened this issue 4 years ago • 3 comments

Attempting to install PyMFEM with option --with-strumpack as follows:

python3 setup.py install --with-parallel --with-strumpack --user

fails with the following error:

Moving to a directory : /home/ben/projects/mfem/PyMFEM/external/mfem/cmbuild_par
calling ... cmake .. -DCMAKE_VERBOSE_MAKEFILE=1 -DBUILD_SHARED_LIBS=1 -DMFEM_ENABLE_EXAMPLES=1 -DMFEM_ENABLE_MINIAPPS=1 -DCMAKE_SHARED_LINKER_FLAGS=-L/home/ben/.local/mfem/lib -L/home/ben/.local/mfem/lib -DMFEM_USE_ZLIB=1 -DCMAKE_CXX_FLAGS=-std=c++11 -DCMAKE_CXX_COMPILER=mpic++ -DMFEM_USE_EXCEPTIONS=0 -DCMAKE_INSTALL_PREFIX=/home/ben/.local/mfem/par -DMFEM_USE_MPI=1 -DMFEM_USE_METIS_5=1 -DHYPRE_DIR=/home/ben/.local/mfem -DMETIS_DIR=/home/ben/.local/mfem -DMFEM_USE_STRUMPACK=1 -STRUMPACK_DIR=/home/ben/.local/mfem
CMake Error: The source directory "/home/ben/projects/mfem/PyMFEM/external/mfem/cmbuild_par/TRUMPACK_DIR=/home/ben/.local/mfem" does not exist.
Specify --help for usage, or press the help button on the CMake GUI.
Failed when calling command: cmake .. -DCMAKE_VERBOSE_MAKEFILE=1 -DBUILD_SHARED_LIBS=1 -DMFEM_ENABLE_EXAMPLES=1 -DMFEM_ENABLE_MINIAPPS=1 -DCMAKE_SHARED_LINKER_FLAGS=-L/home/ben/.local/mfem/lib -L/home/ben/.local/mfem/lib -DMFEM_USE_ZLIB=1 -DCMAKE_CXX_FLAGS=-std=c++11 -DCMAKE_CXX_COMPILER=mpic++ -DMFEM_USE_EXCEPTIONS=0 -DCMAKE_INSTALL_PREFIX=/home/ben/.local/mfem/par -DMFEM_USE_MPI=1 -DMFEM_USE_METIS_5=1 -DHYPRE_DIR=/home/ben/.local/mfem -DMETIS_DIR=/home/ben/.local/mfem -DMFEM_USE_STRUMPACK=1 -STRUMPACK_DIR=/home/ben/.local/mfem
Traceback (most recent call last):
  File "setup.py", line 1110, in <module>
    main()
  File "setup.py", line 1106, in main
    run_setup()
  File "setup.py", line 1094, in run_setup
    setup(
  File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 144, in setup
    return distutils.core.setup(**attrs)
  File "/usr/lib/python3.8/distutils/core.py", line 148, in setup
    dist.run_commands()
  File "/usr/lib/python3.8/distutils/dist.py", line 966, in run_commands
    self.run_command(cmd)
  File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "setup.py", line 916, in run
    _install.run(self)
  File "/usr/lib/python3/dist-packages/setuptools/command/install.py", line 65, in run
    orig.install.run(self)
  File "/usr/lib/python3.8/distutils/command/install.py", line 589, in run
    self.run_command('build')
  File "/usr/lib/python3.8/distutils/cmd.py", line 313, in run_command
    self.distribution.run_command(command)
  File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "/usr/lib/python3.8/distutils/command/build.py", line 135, in run
    self.run_command(cmd_name)
  File "/usr/lib/python3.8/distutils/cmd.py", line 313, in run_command
    self.distribution.run_command(command)
  File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "setup.py", line 948, in run
    cmake_make_mfem(serial=False)
  File "setup.py", line 438, in cmake_make_mfem
    cmake('..', **cmake_opts)
  File "setup.py", line 283, in cmake
    make_call(command)
  File "setup.py", line 211, in make_call
    subprocess.check_call(command, **kwargs)
  File "/usr/lib/python3.8/subprocess.py", line 364, in check_call
    raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['cmake', '..', '-DCMAKE_VERBOSE_MAKEFILE=1', '-DBUILD_SHARED_LIBS=1', '-DMFEM_ENABLE_EXAMPLES=1', '-DMFEM_ENABLE_MINIAPPS=1', '-DCMAKE_SHARED_LINKER_FLAGS=-L/home/ben/.local/mfem/lib -L/home/ben/.local/mfem/lib', '-DMFEM_USE_ZLIB=1', '-DCMAKE_CXX_FLAGS=-std=c++11', '-DCMAKE_CXX_COMPILER=mpic++', '-DMFEM_USE_EXCEPTIONS=0', '-DCMAKE_INSTALL_PREFIX=/home/ben/.local/mfem/par', '-DMFEM_USE_MPI=1', '-DMFEM_USE_METIS_5=1', '-DHYPRE_DIR=/home/ben/.local/mfem', '-DMETIS_DIR=/home/ben/.local/mfem', '-DMFEM_USE_STRUMPACK=1', '-STRUMPACK_DIR=/home/ben/.local/mfem']' returned non-zero exit status 1.

benzwick avatar May 20 '21 13:05 benzwick

There is a typo in the argument passed to CMake. This can be fixed easily. However, STRUMPACK specific wrapper may require rebuilding SWIG wrapper.

sshiraiwa avatar May 23 '21 14:05 sshiraiwa

It appears that the error above is fixed in 4.2.0.16 but now I get the following error. Does STRUMPACK library get installed automatically like Hypre and METIS or do I need to install it myself?

-- Looking for STRUMPACK ...
--    in STRUMPACK_DIR = /home/ben/.local/mfem
CMake Error at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:165 (message):
   *** STRUMPACK not found. Please set STRUMPACK_DIR. (missing: STRUMPACK_LIBRARIES STRUMPACK_INCLUDE_DIRS) 
Call Stack (most recent call first):
  /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:458 (_FPHSA_FAILURE_MESSAGE)
  config/cmake/modules/MfemCmakeUtilities.cmake:623 (find_package_handle_standard_args)
  config/cmake/modules/FindSTRUMPACK.cmake:18 (mfem_find_package)
  CMakeLists.txt:270 (find_package)


-- Configuring incomplete, errors occurred!
See also "/home/ben/projects/mfem/PyMFEM/external/mfem/cmbuild_par/CMakeFiles/CMakeOutput.log".
Failed when calling command: cmake .. -DCMAKE_VERBOSE_MAKEFILE=1 -DBUILD_SHARED_LIBS=1 -DMFEM_ENABLE_EXAMPLES=1 -DMFEM_ENABLE_MINIAPPS=1 -DCMAKE_SHARED_LINKER_FLAGS=-L/home/ben/.local/mfem/lib -L/home/ben/.local/mfem/lib -DMFEM_USE_ZLIB=1 -DCMAKE_CXX_FLAGS=-std=c++11 -DCMAKE_CXX_COMPILER=mpic++ -DMFEM_USE_EXCEPTIONS=0 -DCMAKE_INSTALL_PREFIX=/home/ben/.local/mfem/par -DMFEM_USE_MPI=1 -DMFEM_USE_METIS_5=1 -DHYPRE_DIR=/home/ben/.local/mfem -DMETIS_DIR=/home/ben/.local/mfem -DMFEM_USE_STRUMPACK=1 -DSTRUMPACK_DIR=/home/ben/.local/mfem
Traceback (most recent call last):
  File "setup.py", line 1110, in <module>
    main()
  File "setup.py", line 1106, in main
    run_setup()
  File "setup.py", line 1094, in run_setup
    setup(
  File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 144, in setup
    return distutils.core.setup(**attrs)
  File "/usr/lib/python3.8/distutils/core.py", line 148, in setup
    dist.run_commands()
  File "/usr/lib/python3.8/distutils/dist.py", line 966, in run_commands
    self.run_command(cmd)
  File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "setup.py", line 916, in run
    _install.run(self)
  File "/usr/lib/python3/dist-packages/setuptools/command/install.py", line 65, in run
    orig.install.run(self)
  File "/usr/lib/python3.8/distutils/command/install.py", line 589, in run
    self.run_command('build')
  File "/usr/lib/python3.8/distutils/cmd.py", line 313, in run_command
    self.distribution.run_command(command)
  File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "/usr/lib/python3.8/distutils/command/build.py", line 135, in run
    self.run_command(cmd_name)
  File "/usr/lib/python3.8/distutils/cmd.py", line 313, in run_command
    self.distribution.run_command(command)
  File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "setup.py", line 948, in run
    cmake_make_mfem(serial=False)
  File "setup.py", line 438, in cmake_make_mfem
    cmake('..', **cmake_opts)
  File "setup.py", line 283, in cmake
    make_call(command)
  File "setup.py", line 211, in make_call
    subprocess.check_call(command, **kwargs)
  File "/usr/lib/python3.8/subprocess.py", line 364, in check_call
    raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['cmake', '..', '-DCMAKE_VERBOSE_MAKEFILE=1', '-DBUILD_SHARED_LIBS=1', '-DMFEM_ENABLE_EXAMPLES=1', '-DMFEM_ENABLE_MINIAPPS=1', '-DCMAKE_SHARED_LINKER_FLAGS=-L/home/ben/.local/mfem/lib -L/home/ben/.local/mfem/lib', '-DMFEM_USE_ZLIB=1', '-DCMAKE_CXX_FLAGS=-std=c++11', '-DCMAKE_CXX_COMPILER=mpic++', '-DMFEM_USE_EXCEPTIONS=0', '-DCMAKE_INSTALL_PREFIX=/home/ben/.local/mfem/par', '-DMFEM_USE_MPI=1', '-DMFEM_USE_METIS_5=1', '-DHYPRE_DIR=/home/ben/.local/mfem', '-DMETIS_DIR=/home/ben/.local/mfem', '-DMFEM_USE_STRUMPACK=1', '-DSTRUMPACK_DIR=/home/ben/.local/mfem']' returned non-zero exit status 1.

benzwick avatar May 28 '21 01:05 benzwick

@benzwick STRUMPACK needs to be installed separately. STRUMPACK has a multiple dependencies. It requires an effort to expaned setup.py to install it automatically.

sshiraiwa avatar Jun 02 '21 20:06 sshiraiwa