export_1d_elem_field numbering fixed #55
Workflow file for this run
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| name: Build and Test Matrix | |
| on: [pull_request] | |
| env: | |
| WINDOWS_BASEKIT_URL: https://registrationcenter-download.intel.com/akdlm/irc_nas/18497/w_BaseKit_p_2022.1.2.154_offline.exe | |
| WINDOWS_HPCKIT_LATEST_URL: https://registrationcenter-download.intel.com/akdlm/irc_nas/18529/w_HPCKit_p_2022.1.2.116_offline.exe | |
| WINDOWS_HPCKIT_URL: https://registrationcenter-download.intel.com/akdlm/irc_nas/17392/w_HPCKit_p_2021.1.0.2682_offline.exe | |
| WINDOWS_DPCPP_COMPONENTS: intel.oneapi.win.dpcpp-compiler | |
| WINDOWS_FORTRAN_COMPONENTS: intel.oneapi.win.ifort-compiler | |
| SAMPLES_TAG: 2022.1.0 | |
| jobs: | |
| pipeline: | |
| name: ${{ matrix.config.name }} | |
| runs-on: ${{ matrix.config.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - { | |
| name: "Windows 2019 MSVC", | |
| build_type: "Release", | |
| os: windows-2019, | |
| } | |
| - { | |
| name: "Ubuntu 20.04", | |
| build_type: "Release", | |
| os: ubuntu-20.04, | |
| } | |
| - { | |
| name: "Ubuntu 20.04 with SuperLU", | |
| build_type: "Release", | |
| super_lu: true, | |
| os: ubuntu-20.04, | |
| } | |
| - { | |
| name: "macOS Big Sur 11", | |
| build_type: "Release", | |
| os: macos-11, | |
| } | |
| steps: | |
| # Useful for debugging dll load issues. | |
| # - name: Download Dependencies | |
| # if: runner.os == 'Windows' | |
| # shell: bash | |
| # run: | | |
| # curl -L https://github.com/lucasg/Dependencies/releases/download/v1.11.1/Dependencies_x64_Release.zip -O | |
| # ls | |
| # unzip Dependencies_x64_Release.zip | |
| # - name: Run Dependencies | |
| # if: runner.os == 'Windows' | |
| # shell: cmd | |
| # run: | | |
| # python -VV | |
| # Dependencies.exe -depth 2 -chain "C:/Program Files (x86)/Microsoft Visual Studio/2019/Enterprise/VC/Redist/MSVC/14.29.30133/x64/Microsoft.VC142.CRT/vcruntime140.dll" | |
| # This is not needed, we can just install the Fortran compiler for the HPC kit. | |
| # - name: Install oneAPI base kit | |
| # if: runner.os == 'Windows' | |
| # shell: bash | |
| # run: oneapi/scripts/install_windows.bat $WINDOWS_BASEKIT_URL $WINDOWS_DPCPP_COMPONENTS | |
| # - name: Build oneAPI base kit | |
| # if: runner.os == 'Windows' | |
| # shell: bash | |
| # run: oneapi/scripts/build_windows.bat dpc++ "" $SAMPLES_TAG | |
| # - name: Checkout oneAPI scripts | |
| # if: runner.os == 'Windows' | |
| # uses: actions/checkout@v3 | |
| # with: | |
| # repository: 'hsorby/oneapi-ci' | |
| # path: 'oneapi' | |
| # Caching doesn't work with Visual Studio integration on. | |
| # - name: Cache install oneAPI | |
| # if: runner.os == 'Windows' | |
| # id: cache-install | |
| # uses: actions/cache@v2 | |
| # with: | |
| # path: C:\Program Files (x86)\Intel\oneAPI\compiler | |
| # key: install-${{ env.WINDOWS_HPCKIT_URL }}-${{ env.WINDOWS_FORTRAN_COMPONENTS }}-compiler-${{ hashFiles('**/oneapi/scripts/cache_exclude_windows.sh') }} | |
| - name: Install oneAPI HPC kit | |
| if: runner.os == 'Windows' | |
| uses: hsorby/install-intelfortran-action@main | |
| with: | |
| cache: false | |
| # working-directory: oneapi | |
| # shell: bash | |
| # run: | | |
| # scripts/install_windows.bat $WINDOWS_HPCKIT_URL $WINDOWS_FORTRAN_COMPONENTS | |
| # Delete the following if you don't want to save install logs | |
| # - name: Saving install logs | |
| # if: runner.os == 'Windows' && steps.cache-install.outputs.cache-hit != 'true' | |
| # uses: actions/upload-artifact@v2 | |
| # with: | |
| # name: InstallLogs_${{ github.job }} | |
| # path: | | |
| # oneapi/bootstrapper* | |
| # oneapi/installer* | |
| # retention-days: 7 | |
| # Add in for building a simple Fortran application to test the Fortran compiler is working. | |
| # - name: Build oneAPI HPC kit | |
| # if: runner.os == 'Windows' | |
| # shell: bash | |
| # run: oneapi/scripts/build_windows.bat fortran "" $SAMPLES_TAG | |
| # - name: Exclude unused files from cache | |
| # if: runner.os == 'Windows' && steps.cache-install.outputs.cache-hit != 'true' | |
| # working-directory: oneapi | |
| # run: scripts/cache_exclude_windows.ps1 | |
| - name: Checkout lungsim | |
| uses: actions/checkout@v3 | |
| with: | |
| path: lungsim | |
| - name: Run get Fortran environment script | |
| id: setup-fortran-win | |
| if: runner.os == 'WindowsX' | |
| shell: bash | |
| working-directory: lungsim | |
| run: | | |
| latest_version=`.github/scripts/oneapi-env-vars-location.bat` | |
| echo "ifort compiler: $latest_version" | |
| # latest_version=`echo $latest_version | tr '\' '/'` | |
| # echo $latest_version | |
| # echo "::set-output name=env_bat::${latest_version}" | |
| echo "fc=${latest_version}" >> $GITHUB_OUTPUT | |
| redist_location=`.github/scripts/oneapi-redist-location.bat` | |
| echo "redist location: ${redist_location}" | |
| echo "redist_loc=${redist_location}" >> $GITHUB_OUTPUT | |
| - name: Report CMake version | |
| run: cmake --version | |
| - name: Install SuperLU | |
| if: matrix.config.super_lu | |
| shell: bash | |
| run: sudo apt-get install libsuperlu-dev | |
| - name: Create virtual environment | |
| shell: cmake -P {0} | |
| id: create-venv | |
| run: | | |
| if ("${{ runner.os }}" STREQUAL "Windows") | |
| set(SYS_PYTHON_EXE python) | |
| else() | |
| set(SYS_PYTHON_EXE python3) | |
| endif() | |
| execute_process( | |
| COMMAND ${SYS_PYTHON_EXE} -m venv venv | |
| RESULT_VARIABLE result | |
| ) | |
| if (NOT result EQUAL 0) | |
| message(FATAL_ERROR "Failed to create virtual environment.") | |
| endif() | |
| if ("${{ runner.os }}" STREQUAL "Windows") | |
| file(GLOB PYTHON_EXE venv/Scripts/python.exe) | |
| file(GLOB PIP_EXE venv/Scripts/pip.exe) | |
| else() | |
| file(GLOB PYTHON_EXE venv/bin/python) | |
| file(GLOB PIP_EXE venv/bin/pip) | |
| endif() | |
| execute_process( | |
| COMMAND ${PYTHON_EXE} -m pip install numpy | |
| RESULT_VARIABLE result | |
| ) | |
| if (NOT result EQUAL 0) | |
| message(FATAL_ERROR "Failed to install numpy to virtual environment.") | |
| endif() | |
| file(APPEND $ENV{GITHUB_OUTPUT} "python_exe=${PYTHON_EXE}\n") | |
| file(APPEND $ENV{GITHUB_OUTPUT} "pip_exe=${PIP_EXE}\n") | |
| - name: Generate build instructions - Windows | |
| shell: cmd | |
| if: runner.os == 'Windows' | |
| run: | | |
| cmake -S lungsim -B build-lungsim -D CMAKE_Fortran_COMPILER="%INTEL_COMPILER_BIN_PATH:\=/%/ifort.exe" -D AETHER_ENABLE_TESTS=FALSE -D Python_EXECUTABLE=${{ steps.create-venv.outputs.python_exe }} | |
| - name: Generate build instructions - Linux | |
| shell: bash | |
| if: runner.os == 'Linux' | |
| run: | | |
| cmake \ | |
| -S lungsim \ | |
| -B build-lungsim \ | |
| -D CMAKE_Fortran_COMPILER=gfortran \ | |
| -D AETHER_ENABLE_TESTS=FALSE \ | |
| -D CMAKE_BUILD_TYPE=${{ matrix.config.build_type }} \ | |
| -D Python_EXECUTABLE=${{ steps.create-venv.outputs.python_exe }} | |
| - name: Generate build instructions - macOS | |
| shell: bash | |
| if: runner.os == 'macOS' | |
| run: | | |
| cmake \ | |
| -S lungsim \ | |
| -B build-lungsim \ | |
| -D CMAKE_Fortran_COMPILER=gfortran-10 \ | |
| -D AETHER_ENABLE_TESTS=FALSE \ | |
| -D CMAKE_BUILD_TYPE=${{ matrix.config.build_type }} \ | |
| -D Python_EXECUTABLE=${{ steps.create-venv.outputs.python_exe }} | |
| - name: Build lungsim | |
| shell: cmake -P {0} | |
| run: | | |
| if ("${{ runner.os }}" STREQUAL "Windows") | |
| set(WINDOWS_BUILD_CONFIG --config ${{ matrix.config.build_type }}) | |
| endif() | |
| execute_process( | |
| COMMAND cmake --build build-lungsim ${WINDOWS_BUILD_CONFIG} | |
| RESULT_VARIABLE result | |
| OUTPUT_VARIABLE output | |
| ERROR_VARIABLE output | |
| ECHO_OUTPUT_VARIABLE ECHO_ERROR_VARIABLE | |
| ) | |
| if (NOT result EQUAL 0) | |
| string(REGEX MATCH "FAILED:.*$" error_message "${output}") | |
| string(REPLACE "\n" "%0A" error_message "${error_message}") | |
| message("::error::${error_message}") | |
| message(FATAL_ERROR "Build failed.") | |
| endif() | |
| - name: Test lungsim | |
| shell: bash | |
| run: | | |
| if [ "${{ runner.os }}" == "Windows" ]; then | |
| multi_config_dir=/${{ matrix.config.build_type }} | |
| fi | |
| ${{ steps.create-venv.outputs.pip_exe }} install wheel | |
| ${{ steps.create-venv.outputs.pip_exe }} install $GITHUB_WORKSPACE/build-lungsim/src/bindings/python$multi_config_dir | |
| if [ "${{ runner.os }}" == "Windows" ]; then | |
| # Horrible hack for GitHub actions Windows virtual machine. | |
| prefix_path=$(dirname $(dirname ${{ steps.create-venv.outputs.python_exe }})) | |
| cp $prefix_path/Library/bin/libifcoremd.dll $GITHUB_WORKSPACE/venv/Lib/site-packages/aether | |
| cp $prefix_path/Library/bin/libmmd.dll $GITHUB_WORKSPACE/venv/Lib/site-packages/aether | |
| cp $prefix_path/Library/bin/svml_dispmd.dll $GITHUB_WORKSPACE/venv/Lib/site-packages/aether | |
| fi | |
| ${{ steps.create-venv.outputs.python_exe }} $GITHUB_WORKSPACE/lungsim/.github/scripts/diagnostics_test.py | |
| exit $? |