Problem about installing mgis.fenics Python module

installation
1

hi, everyone, i want to use mgis.fenics python module.
I have done the following steps to install “MFrontGenericInterfaceSupport”
1 unzip field in C:/MFrontGenericInterfaceSupport (field from this website)
2 type cd /mnt/c/MFrontGenericInterfaceSupport on terminal windows
3 type cmake .
4 type cmake
5 type make
6 type make check
7 type make install

but after completing above steps, pycharm can not still identify mgis.fenics. i don’t know which step i wrongly make or lost.

I have found in the “INSTALL-cmake.md” field, there are 2 options could be related but i do not know in which step i should use them.

  • enable-python-bindings : compiles the Python bindings. This requires the Boost/Python library to be available (default=OFF)
  • enable-fenics-bindings : compiles the FEniCS bindings. Those bindings are experimental and very limited. To use MGIS with FEniCS , usage of the Python bindings are encouraged.

My OS is win10 and install ubuntu on it.

Thanks in advance

2

Hi, you need to indeed activate the python bindings which contain the mgis.fenics module with

cmake -Denable-python-bindings=ON

The FEniCS bindings were an attempt using the C++ interface.

You should also have libboost_python installed before compiling MGIS.

You may also want to specify the python version associated with FEniCS if you have different versions installed using in the cmake command an additional -DPython_ADDITIONAL_VERSIONS=3.6 for instance for Python 3.6

3

Hi, bleyerj. after runing cmake -Denable-python-bindings=ON and cmake -Denable-fenics-bindings=ON in step4. Pycharm can not still identify mgis.
when installing this package, the terminal windows return the following details (just parts and sorry for uploading so many, i really do not know what mistakes happen.

step3: type cmake .

zhiyi@DESKTOP-9ME6CPV:/mnt/c/MFrontGenericInterfaceSupport-master$ cmake .
– found python 3.6.9
– python include path /usr/include/python3.6m
– python libraries path /usr/lib/x86_64-linux-gnu
– python library python3.6m
– python interpreter /usr/bin/python3.6
– Trying to find libboost_python-py36
– Could NOT find Boost: missing: python-py36 (found /usr/local/lib/cmake/Boost-1.72.0/BoostConfig.cmake (found suitable version “1.72.0”, minimum required is “1.36.0”))
– Trying to find libboost_python36
– Boost library python found (Boost::python).
– python bindings support enabled
– enabling flag ‘Wno-conversion’
– enabling flag ‘Wall’
…
– enabling flag ‘fno-fast-math’
– enabling flag ‘ffast-math’
unknown option --python-version
Valid options are:
–all : request flags for all librairies.
–compiler-flags : return tfel recommended compiler flags.
–cppflags : return preprocessor flags.
–cxx-standard : print the version of the C++ standard used to compile TFEL.
–exceptions : request flags for TFELException.
–glossary : request flags for TFELGlossary.
–help : print this help message.
–include-path : return the path to the TFEL headers.
–includes : return tfel include path.
–ldflags : return linking flags.
–library-dependency: return the dependencies of a TFEL library.
–library-path : return the path to the TFEL library.
–libs : return linking flags.
–licence : print tfel licences.
–major-number : print tfel major version.
–material : request flags for TFELMaterial.
–math : request flags for TFELMath.
–math-cubic-spline: request flags for TFELMathCubicSpline.
–math-kriging : request flags for TFELMathKriging.
–math-parser : request flags for TFELMathParser.
–mfront-profiling: request flags for libMFrontProfiling.
–minor-number : print tfel minor version.
–numodis : request flags for TFELNUMODIS.
–oflags : return tfel recommended optimisation flags with architecture specific flags.
–oflags0 : return tfel recommended optimisation flags without architecture specific flags.
–oflags2 : return some aggressive optimisation flags, possibly at the expense of numerical precision. This shall be added to --oflags results.
–physical-constants: request flags for TFELPhysicalConstants.
–revision-number : print tfel revision version.
–system : request flags for TFELSystem.
–tests : request flags for TFELTests.
–unicode-support : request flags for TFELUnicodeSupport.
–utilities : request flags for TFELUtilities.
–version : print tfel version and svn revision.
–warning : return tfel recommended warnings.
– no tfel python bindings
– tfel version : 3.3.0
– tfel C++ standard : 11
– mfront : /usr/local/bin/mfront
– tfel-config : /usr/local/bin/tfel-config
– tfel-check : /usr/local/bin/tfel-check
– tfel include : /usr/local/include
– tfel libs : /usr/local/lib
– TFELTests : /usr/local/lib/libTFELTests.so
– TFELTests : /usr/local/lib/libTFELTests.so
– TFELException : /usr/local/lib/libTFELException.so
– TFELUtilities : /usr/local/lib/libTFELUtilities.so
– TFELMath : /usr/local/lib/libTFELMath.so
– TFELMaterial : /usr/local/lib/libTFELMaterial.so
– TFELPhysicalConstants : /usr/local/lib/libTFELPhysicalConstants.so
– doxygen documentation is not enabled
– Enabling generation of documentation based on jupyter-nbconvert
– jupyter-nbconvert: /home/zhiyi/.local/bin/jupyter-nbconvert
– Adding library : BehaviourTest (src/StandardElastoViscoPlasticityPlasticityTest11.cxx;src/StandardElastoViscoPlasticityPlasticityTest11-generic.cxx;src/FiniteStrainSingleCrystal.cxx;src/FiniteStrainSingleCrystal-generic.cxx;src/ParameterTest.cxx;src/ParameterTest-generic.cxx;src/BoundsCheckTest.cxx;src/BoundsCheckTest-generic.cxx;src/Gurson.cxx;src/Gurson-generic.cxx;src/Plasticity.cxx;src/Plasticity-generic.cxx;src/Norton.cxx;src/Norton-generic.cxx;src/Elasticity.cxx;src/Elasticity-generic.cxx)
– Configuring done
– Generating done
– Build files have been written to: /mnt/c/MFrontGenericInterfaceSupport-master

step4: type cmake -DPython_ADDITIONAL_VERSIONS=3.6 and cmake -Denable-python-bindings=ON and cmake -Denable-fenics-bindings=ON

zhiyi@DESKTOP-9ME6CPV:/mnt/c/MFrontGenericInterfaceSupport-master$ cmake -DPython_ADDITIONAL_VERSIONS=3.6
CMake Warning:
No source or binary directory provided. Both will be assumed to be the
same as the current working directory, but note that this warning will
become a fatal error in future CMake releases.

– found python 3.6.9
– python include path /usr/include/python3.6m
– python libraries path /usr/lib/x86_64-linux-gnu
– python library python3.6m
– python interpreter /usr/bin/python3.6
– Trying to find libboost_python-py36
– Could NOT find Boost: missing: python-py36 (found /usr/local/lib/cmake/Boost-1.72.0/BoostConfig.cmake (found suitable version “1.72.0”, minimum required is “1.36.0”))
– Trying to find libboost_python36
– Boost library python found (Boost::python).
– python bindings support enabled
– enabling flag ‘Wno-conversion’
– enabling flag ‘Wall’
zhiyi@DESKTOP-9ME6CPV:/mnt/c/MFrontGenericInterfaceSupport-master$ cmake -Denable-python-bindings=ON
CMake Warning:
No source or binary directory provided. Both will be assumed to be the
same as the current working directory, but note that this warning will
become a fatal error in future CMake releases.

– found python 3.6.9
– python include path /usr/include/python3.6m
– python libraries path /usr/lib/x86_64-linux-gnu
– python library python3.6m
– python interpreter /usr/bin/python3.6
– Trying to find libboost_python-py36
– Could NOT find Boost: missing: python-py36 (found /usr/local/lib/cmake/Boost-1.72.0/BoostConfig.cmake (found suitable version “1.72.0”, minimum required is “1.36.0”))
– Trying to find libboost_python36
– Boost library python found (Boost::python).
– python bindings support enabled
– enabling flag ‘Wno-conversion’
– enabling flag ‘Wall’
zhiyi@DESKTOP-9ME6CPV:/mnt/c/MFrontGenericInterfaceSupport-master$ cmake -Denable-fenics-bindings=ON
CMake Warning:
No source or binary directory provided. Both will be assumed to be the
same as the current working directory, but note that this warning will
become a fatal error in future CMake releases.

– found python 3.6.9
– python include path /usr/include/python3.6m
– python libraries path /usr/lib/x86_64-linux-gnu
– python library python3.6m
– python interpreter /usr/bin/python3.6
– Trying to find libboost_python-py36
– Could NOT find Boost: missing: python-py36 (found /usr/local/lib/cmake/Boost-1.72.0/BoostConfig.cmake (found suitable version “1.72.0”, minimum required is “1.36.0”))
– Trying to find libboost_python36
– Boost library python found (Boost::python).
– Found PkgConfig: /usr/bin/pkg-config (found version “0.29.1”)
– Checking for one of the modules ‘craypetsc_real;PETSc’
– Looking for sys/types.h
– Looking for sys/types.h - found
– Looking for stdint.h
– Looking for stdint.h - found
– Looking for stddef.h
– Looking for stddef.h - found
– Check size of PetscInt
– Check size of PetscInt - done
– Checking for one of the modules ‘crayslepc_real;SLEPc’
– python bindings support enabled
– FEniCS bindings support enabled
– enabling flag ‘Wno-conversion’
– enabling flag ‘Wall’

step5:type make

zhiyi@DESKTOP-9ME6CPV:/mnt/c/MFrontGenericInterfaceSupport-master$ make
[ 2%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/ThreadPool.cxx.o
[ 5%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/ThreadedTaskResult.cxx.o
[ 8%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/LibrariesManager.cxx.o
[ 10%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/Markdown.cxx.o
/mnt/c/MFrontGenericInterfaceSupport-master/src/Markdown.cxx: In function ‘std::__cxx11::string mgis::utilities::get_heading_signs(mgis::size_type)’:
/mnt/c/MFrontGenericInterfaceSupport-master/src/Markdown.cxx:21:57: warning: unused parameter ‘l’ [-Wunused-parameter]
std::string get_heading_signs(const mgis::size_type l) {
^
[ 13%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/MatrixView.cxx.o
[ 16%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/Variable.cxx.o
[ 18%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/Hypothesis.cxx.o
[ 21%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/Behaviour.cxx.o
/mnt/c/MFrontGenericInterfaceSupport-master/src/Behaviour.cxx: In lambda function:
/mnt/c/MFrontGenericInterfaceSupport-master/src/Behaviour.cxx:190:7: warning: control reaches end of non-void function [-Wreturn-type]
}();
^
/mnt/c/MFrontGenericInterfaceSupport-master/src/Behaviour.cxx: In lambda function:
/mnt/c/MFrontGenericInterfaceSupport-master/src/Behaviour.cxx:222:7: warning: control reaches end of non-void function [-Wreturn-type]
}();
^
[ 24%] Building CXX object src/CMakeFiles/MFrontGenericInterface.dir/ChangeBasis.cxx.o
…
[ 75%] Linking CXX shared module behaviour.so
[ 75%] Built target py_mgis_behaviour
[ 78%] Building CXX object bindings/python/src/CMakeFiles/py_mgis.dir/mgis-module.cxx.o
[ 81%] Building CXX object bindings/python/src/CMakeFiles/py_mgis.dir/ThreadPool.cxx.o
[ 81%] Linking CXX shared module _mgis.so
[ 81%] Built target py_mgis
Scanning dependencies of target MFrontGenericInterface-FEniCS
[ 83%] Building CXX object bindings/fenics/src/CMakeFiles/MFrontGenericInterface-FEniCS.dir/Utils.cxx.o
[ 86%] Building CXX object bindings/fenics/src/CMakeFiles/MFrontGenericInterface-FEniCS.dir/NonLinearMaterial.cxx.o
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
/usr/include/eigen3/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix<double, -1, 1>’
/usr/include/dolfin/function/GenericFunction.h:82:49: required from here
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
[100%] Linking CXX shared library libMFrontGenericInterface-FEniCS.so
[100%] Built target MFrontGenericInterface-FEniCS

step6: make check

zhiyi@DESKTOP-9ME6CPV:/mnt/c/MFrontGenericInterfaceSupport-master$ make check
[ 0%] Generating MGISSmallStrainFormulation3D.cpp, MGISSmallStrainFormulation3D.h
[ 1%] Generating MGISSmallStrainFormulation2D.cpp, MGISSmallStrainFormulation2D.h
Scanning dependencies of target MFrontGenericInterfaceFEniCSTestingUtilities
[ 2%] Building CXX object bindings/fenics/tests/src/CMakeFiles/MFrontGenericInterfaceFEniCSTestingUtilities.dir/FEniCSTestingUtilities.cxx.o
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]
cc1plus: warning: this condition has identical branches [-Wduplicated-branches]

step7: sudo make install

zhiyi@DESKTOP-9ME6CPV:/mnt/c/MFrontGenericInterfaceSupport-master$ sudo make install
[ 40%] Built target MFrontGenericInterface
[ 75%] Built target py_mgis_behaviour
[ 81%] Built target py_mgis
[100%] Built target MFrontGenericInterface-FEniCS
Install the project…
– Install configuration: “”
– Up-to-date: /usr/local/share/doc/mgis/web/css
– Up-to-date: /usr/local/share/doc/mgis/web/css/main.css
– Up-to-date: /usr/local/share/doc/mgis/web/css/normalize.css
– Up-to-date: /usr/local/share/doc/mgis/web/css/slideshow.css
– Up-to-date: /usr/local/share/doc/mgis/web/img
– Up-to-date: /usr/local/share/doc/mgis/web/img/finite_strain_plasticity_solution.png
– Up-to-date: /usr/local/share/doc/mgis/web/img/fuel_rod_solution.png
– Up-to-date: /usr/local/share/doc/mgis/web/img/multiphase_kinematics.svg
– Up-to-date: /usr/local/share/doc/mgis/web/img/phase_change_law.svg
– Up-to-date: /usr/local/share/doc/mgis/web/img/solidification_front.gif
– Up-to-date: /usr/local/share/doc/mgis/web/img/Temperature_Castem_FEniCS.png
– Up-to-date: /usr/local/include/MGIS/Config-c.h
– Up-to-date: /usr/local/include/MGIS/Config.hxx
– Up-to-date: /usr/local/include/MGIS/Cste.hxx
– Up-to-date: /usr/local/include/MGIS/MatrixView.hxx
– Up-to-date: /usr/local/include/MGIS/MatrixView.ixx
– Up-to-date: /usr/local/include/MGIS/Raise.ixx
– Up-to-date: /usr/local/include/MGIS/Raise.hxx
– Up-to-date: /usr/local/include/MGIS/Span.hxx
– Up-to-date: /usr/local/include/MGIS/StringView.hxx
– Up-to-date: /usr/local/include/MGIS/StringView.ixx
– Up-to-date: /usr/local/include/MGIS/Variant.hxx
– Up-to-date: /usr/local/include/MGIS/ThreadPool.hxx
– Up-to-date: /usr/local/include/MGIS/ThreadPool.ixx
– Up-to-date: /usr/local/include/MGIS/ThreadedTaskResult.hxx
– Up-to-date: /usr/local/include/MGIS/ThreadedTaskResult.ixx
– Up-to-date: /usr/local/include/MGIS/Utilities/Markdown.hxx
– Up-to-date: /usr/local/include/MGIS/LibrariesManager.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/Hypothesis.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/Variable.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/BehaviourFctPtr.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/Behaviour.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/ChangeBasis.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/StateView.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/StateView.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/BehaviourData.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/BehaviourDataView.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/State.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/MaterialStateManager.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/MaterialDataManager.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/Integrate.hxx
– Up-to-date: /usr/local/include/MGIS/Behaviour/Integrate.ixx
– Installing: /usr/local/lib/libMFrontGenericInterface.so
– Up-to-date: /usr/local/share/mgis/cmake/MFrontGenericInterfaceConfig.cmake
– Installing: /usr/local/share/mgis/cmake/MFrontGenericInterfaceConfig-noconfig.cmake
– Installing: /usr/local/lib/python3.6/site-packages/mgis/_mgis.so
– Set runtime path of “/usr/local/lib/python3.6/site-packages/mgis/_mgis.so” to “”
– Installing: /usr/local/lib/python3.6/site-packages/mgis/behaviour.so
– Set runtime path of “/usr/local/lib/python3.6/site-packages/mgis/behaviour.so” to “”
– Up-to-date: /usr/local/lib/python3.6/site-packages/mgis/init.py
– Up-to-date: /usr/local/lib/python3.6/site-packages/mgis/fenics/init.py
– Up-to-date: /usr/local/lib/python3.6/site-packages/mgis/fenics/gradient_flux.py
– Up-to-date: /usr/local/lib/python3.6/site-packages/mgis/fenics/utils.py
– Up-to-date: /usr/local/lib/python3.6/site-packages/mgis/fenics/nonlinear_material.py
– Up-to-date: /usr/local/lib/python3.6/site-packages/mgis/fenics/nonlinear_problem.py

4

It seems that it has been correctly installed in /usr/local/lib/python3.6/site-packages
Can you run with python3 :

import sys
sys.path

if /usr/local/lib/python3.6/site-packages is not in the list, then add it to your .basrhc file

export PYTHONPATH=$PYTHONPATH:/usr/local/lib/python3.6/site-packages
5

have add it to .basrhc file but still doesn’t work.

zhiyi@DESKTOP-9ME6CPV:~$ python3
Python 3.6.9 (default, Nov  7 2019, 10:44:02)
[GCC 8.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import sys
>>> sys.path
['', '/home/zhiyi', '/usr/local/lib/python3.6/site-packages', '/usr/lib/python36.zip', '/usr/lib/python3.6', '/usr/lib/python3.6/lib-dynload', '/home/zhiyi/.local/lib/python3.6/site-packages', '/usr/local/lib/python3.6/dist-packages', '/usr/lib/python3/dist-packages']
>>>

image
image709×262 20.9 KB

6

Strange, what happens if you type in python3:

import mgis
7 
zhiyi@DESKTOP-9ME6CPV:~$ python3
Python 3.6.9 (default, Nov  7 2019, 10:44:02)
[GCC 8.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import mgis
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/usr/local/lib/python3.6/site-packages/mgis/__init__.py", line 1, in <module>
    from ._mgis import *
ImportError: libMFrontGenericInterface.so: cannot open shared object file: No such file or directory
>>>
8

I think that the problem comes from Boost python. Do you have libboost-python-dev installed ?

9 
zhiyi@DESKTOP-9ME6CPV:~$ sudo apt-get install -y libboost-python-dev
Reading package lists... Done
Building dependency tree
Reading state information... Done
libboost-python-dev is already the newest version (1.65.1.0ubuntu1).
libboost-python-dev set to manually installed.
0 upgraded, 0 newly installed, 0 to remove and 51 not upgraded.

but still doesn’t work

10

Hi Daniel,
Thanks for your interest for MGIS.
the mgis python modules is based on the C++ libMFrontGenericInterface.so shared library. My bet would be that you updated you PYTHONPATH and not your LD_LIBRARY_PATH. Could you check ?

According to this line:

/usr/local/lib/libMFrontGenericInterface.so

you must check that /usr/local/lib/ is in the linker search path.

11

Hi, thelfer. I found “libMFrontGenericInterface.so” is in the “lib” folder

zhiyi@DESKTOP-9ME6CPV:/usr/local/lib$ ls
cmake                          libboost_iostreams.a                 libboost_random.so.1.72
libMFMTestGenerator.so         libboost_iostreams.so                libboost_random.so.1.72.0
libMFrontGenericInterface.so   libboost_iostreams.so.1              libboost_regex.a
libMFrontLogStream.so          libboost_iostreams.so.1.72           libboost_regex.so
libMFrontProfiling.so          libboost_iostreams.so.1.72.0         libboost_regex.so.1
libMTestFileGenerator.so       libboost_locale.a                    libboost_regex.so.1.72

is that mean “LD_LIBRARY_PATH” has been updated?

image
image1722×597 80.2 KB

but the color of libMFrontGenericInterface.so is white, which mean no-updated?

12

I guess the following info could be a problem but i di not know how to fix it.

zhiyi@DESKTOP-9ME6CPV:~$ sudo /sbin/ldconfig -v
[sudo] password for zhiyi:
/sbin/ldconfig.real: Can't stat /usr/local/lib/x86_64-linux-gnu: No such file or directory
/sbin/ldconfig.real: Path `/usr/local/lib/libMFrontGenericInterface.so' given more than once
/sbin/ldconfig.real: Path `/usr/local/lib/libMFrontGenericInterface.so' given more than once
/sbin/ldconfig.real: Path `/lib/x86_64-linux-gnu' given more than once
/sbin/ldconfig.real: Path `/usr/lib/x86_64-linux-gnu' given more than once
/usr/lib/x86_64-linux-gnu/libfakeroot:
        libfakeroot-0.so -> libfakeroot-tcp.so
/usr/local/lib/libMFrontGenericInterface.so:
/sbin/ldconfig.real: Can't open directory /usr/local/lib/libMFrontGenericInterface.so: Not a directory
/usr/local/lib:
        libboost_wserialization.so.1.72.0 -> libboost_wserialization.so.1.72.0
        libboost_wave.so.1.72.0 -> libboost_wave.so.1.72.0
        libboost_unit_test_framework.so.1.72.0 -> libboost_unit_test_framework.so.1.72.0
13

Can you give me the resutls of :

  1. ldd /usr/local/lib/python3.6/site-packages/mgis/_mgis.so
  2. echo $LD_LIBRARY_PATH
14 
zhiyi@DESKTOP-9ME6CPV:~$ ldd /usr/local/lib/python3.6/site-packages/mgis/_mgis.so
        linux-vdso.so.1 (0x00007fffd2662000)
        libMFrontGenericInterface.so => /usr/local/lib/libMFrontGenericInterface.so (0x00007f1157a40000)
        libboost_python36.so.1.72.0 => /usr/local/lib/libboost_python36.so.1.72.0 (0x00007f1157800000)
        libpython3.6m.so.1.0 => /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0 (0x00007f1157140000)
        libstdc++.so.6 => /usr/lib/x86_64-linux-gnu/libstdc++.so.6 (0x00007f1156db0000)
        libgcc_s.so.1 => /lib/x86_64-linux-gnu/libgcc_s.so.1 (0x00007f1156b90000)
        libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f1156790000)
        libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007f1156570000)
        libpthread.so.0 => /lib/x86_64-linux-gnu/libpthread.so.0 (0x00007f1156350000)
        /lib64/ld-linux-x86-64.so.2 (0x00007f1158000000)
        libexpat.so.1 => /lib/x86_64-linux-gnu/libexpat.so.1 (0x00007f1156110000)
        libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007f1155ef0000)
        libutil.so.1 => /lib/x86_64-linux-gnu/libutil.so.1 (0x00007f1155ce0000)
        libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f1155940000)
zhiyi@DESKTOP-9ME6CPV:~$ echo $LD_LIBRARY_PATH
:/usr/local/lib/
15

This is the revelant line. So libMFrontGenericInterface.so is found. And in this configuration, you still get an error when importing the mgis module ?

16

still get an error.

image
image1264×688 52.3 KB

17

What is the return of python3 -c "import mgis" ?

18 
zhiyi@DESKTOP-9ME6CPV:~$ python3 -c "import mgis"
zhiyi@DESKTOP-9ME6CPV:~$ python3
Python 3.6.9 (default, Nov  7 2019, 10:44:02)
[GCC 8.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import mgis
>>>
19

So we made some progress.
What is the error when running the mgis.fenics example ?

20

still can not identify mgis module

C:\Users\Danie\AppData\Local\Microsoft\WindowsApps\ubuntu.exe run "export PYTHONUNBUFFERED=1 && export PYTHONIOENCODING=UTF-8 && export \"PYTHONPATH=/mnt/c/Users/Danie/OneDrive/桌面/PhaseField_fracture:/mnt/c/Program Files/JetBrains/PyCharm 2020.1/plugins/python/helpers/pycharm_matplotlib_backend:/mnt/c/Program Files/JetBrains/PyCharm 2020.1/plugins/python/helpers/pycharm_display\" && export PYCHARM_HOSTED=1 && export PYCHARM_DISPLAY_PORT=63342 && cd /mnt/c/Users/Danie/OneDrive/桌面/PhaseField_fracture && /usr/bin/python3 /mnt/c/Users/Danie/OneDrive/桌面/PhaseField_fracture/PhaseFieldFracture.py"
Traceback (most recent call last):
  File "/mnt/c/Users/Danie/OneDrive/桌面/PhaseField_fracture/PhaseFieldFracture.py", line 276, in <module>
    import mgis.fenics as mf
ModuleNotFoundError: No module named 'mgis'

Process finished with exit code 1