Sped up Smoldyn suface and panel lookup with new c-safe Hashtable
#25
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| name: "Build Wheels" | ||
| on: | ||
| workflow_dispatch: | ||
| pull_request: | ||
| push: | ||
| branches: | ||
| - master | ||
| release: | ||
| types: | ||
| - published | ||
| jobs: | ||
| build_wheels: | ||
| name: Build Python Wheels on ${{ matrix.os }} | ||
| runs-on: ${{ matrix.os }} | ||
| strategy: | ||
| matrix: | ||
| os: [ubuntu-latest, ubuntu-24.04-arm, windows-latest, macos-13, macos-14] | ||
| python_version: ["cp39-*", "cp310-*", "cp311-*", "cp312-*", "cp313-*"] | ||
| steps: | ||
| - name: Checkout repository | ||
| uses: actions/checkout@v4 | ||
| with: | ||
| submodules: true | ||
| - name: Install Ubuntu Dependencies | ||
| if: matrix.os == 'ubuntu-latest' || matrix.os == 'ubuntu-24.04-arm' | ||
| run: | | ||
| sudo apt update | ||
| sudo apt install -y wget gfortran cmake ninja-build libboost-all-dev libzip-dev libhdf5-dev libbz2-dev libssl-dev liblzma-dev | ||
| # for some reason, there aren't headers included in libzip-dev???? so we're building from source! | ||
| mkdir ../libzip-source | ||
| wget https://libzip.org/download/libzip-1.11.3.tar.gz | ||
| tar -xzvf libzip-1.11.3.tar.gz -C ../libzip-source | ||
| cmake -S ../libzip-source/libzip-1.11.3 -B ../libzip-source/libzip-1.11.3/build -G Ninja | ||
| cmake --build ../libzip-source/libzip-1.11.3/build | ||
| sudo cmake --install ../libzip-source/libzip-1.11.3/build | ||
| echo "Confirming header presence..." | ||
| - name: Install Intel MacOS Dependencies | ||
| if: matrix.os == 'macos-13' | ||
| shell: bash | ||
| run: | | ||
| brew install boost | ||
| brew install hdf5 | ||
| brew install libzip | ||
| brew install ninja | ||
| brew install libaec | ||
| brew install llvm | ||
| echo 'export PATH="/usr/local/opt/llvm/bin:$PATH"' >> /Users/runner/.bash_profile | ||
| source /Users/runner/.bash_profile | ||
| ln -s $(which gfortran-14) /usr/local/bin/gfortran | ||
| - name: Install ARM MacOS dependencies | ||
| if: matrix.os == 'macos-14' | ||
| shell: bash | ||
| run: | | ||
| brew install boost | ||
| brew install hdf5 | ||
| brew install libzip | ||
| brew install ninja | ||
| brew install libaec | ||
| brew install llvm | ||
| echo 'export PATH="/opt/homebrew/opt/llvm/bin:$PATH"' >> /Users/runner/.bash_profile | ||
| ln -s /opt/homebrew/bin/gfortran-14 /usr/local/bin/gfortran | ||
| - name: Install Windows Dependencies | ||
| if: matrix.os == 'windows-latest' | ||
| run: | | ||
| choco install cmake --installargs 'ADD_CMAKE_TO_PATH=System' | ||
| choco install ninja | ||
| choco install msys2 | ||
| C:\tools\msys64\usr\bin\bash -lc "pacman -Sy --noconfirm \ | ||
| mingw-w64-clang-x86_64-cmake \ | ||
| mingw-w64-clang-x86_64-ninja \ | ||
| mingw-w64-clang-x86_64-toolchain \ | ||
| mingw-w64-clang-x86_64-boost \ | ||
| mingw-w64-clang-x86_64-hdf5 \ | ||
| mingw-w64-clang-x86_64-zlib \ | ||
| mingw-w64-clang-x86_64-libaec" | ||
| echo "C:\tools\msys64\mingw64\bin" | Out-File -Append -Encoding ascii $env:GITHUB_PATH | ||
| echo "C:\tools\msys64\clang64\bin" | Out-File -Append -Encoding ascii $env:GITHUB_PATH | ||
| echo "C:\tools\msys64\clang64\lib" | Out-File -Append -Encoding ascii $env:GITHUB_PATH | ||
| echo "C:\tools\msys64\clang64\include" | Out-File -Append -Encoding ascii $env:GITHUB_PATH | ||
| - name: Build Wheels (Windows) | ||
| uses: pypa/cibuildwheel@v2.23.2 | ||
| if: matrix.os == 'windows-latest' | ||
| env: | ||
| CIBW_BUILD: ${{ matrix.python_version }} | ||
| CIBW_BEFORE_BUILD: "pip install cmake ninja" | ||
| CIBW_ENVIRONMENT: > | ||
| CC=clang | ||
| CXX=clang++ | ||
| CMAKE_GENERATOR=Ninja | ||
| # with: | ||
| # package-dir: . | ||
| # output-dir: wheelhouse | ||
| # config-file: "{package}/pyproject.toml" | ||
| - name: Build Wheels (MacOS<x86_64>) | ||
| uses: pypa/cibuildwheel@v2.23.2 | ||
| if: matrix.os == 'macos-13' | ||
| env: | ||
| CIBW_BUILD: ${{ matrix.python_version }} | ||
| CIBW_ENVIRONMENT: > | ||
| FC=/usr/local/bin/gfortran | ||
| # with: | ||
| # package-dir: . | ||
| # output-dir: wheelhouse | ||
| # config-file: "{package}/pyproject.toml" | ||
| - name: Build Wheels (MacOS<ARM>) | ||
| uses: pypa/cibuildwheel@v2.23.2 | ||
| if: matrix.os == 'macos-14' | ||
| env: | ||
| MACOSX_DEPLOYMENT_TARGET: 14.0 | ||
| CIBW_BUILD: ${{ matrix.python_version }} | ||
| CIBW_ENVIRONMENT: > | ||
| FC=/opt/homebrew/bin/gfortran-14 | ||
| # with: | ||
| # package-dir: . | ||
| # output-dir: wheelhouse | ||
| # config-file: "{package}/pyproject.toml" | ||
| - name: Build Wheels (Linux<ARM>) | ||
| uses: pypa/cibuildwheel@v2.23.2 | ||
| if: matrix.os == 'ubuntu-24.04-arm' | ||
| env: | ||
| CIBW_BUILD: ${{ matrix.python_version }} | ||
| CIBW_BEFORE_BUILD: "pip install h5py && export LIBZIP_INCLUDE_DIR=/usr/local/include && export LIBZIP_LIBRARY=/usr/local/lib/libzip.so" | ||
| # with: | ||
| # package-dir: . | ||
| # output-dir: wheelhouse | ||
| # config-file: "{package}/pyproject.toml" | ||
| - name: Build Wheels (Linux<x86_64>) | ||
| uses: pypa/cibuildwheel@v2.23.2 | ||
| if: matrix.os == 'ubuntu-latest' | ||
| env: | ||
| CIBW_BUILD: ${{ matrix.python_version }} | ||
| CIBW_BEFORE_BUILD: "pip install h5py && export LIBZIP_INCLUDE_DIR=/usr/local/include && export LIBZIP_LIBRARY=/usr/local/lib/libzip.so" | ||
| # with: | ||
| # package-dir: . | ||
| # output-dir: wheelhouse | ||
| # config-file: "{package}/pyproject.toml" | ||
| - uses: actions/upload-artifact@v4 | ||
| with: | ||
| name: pyvcell-fv-${{ matrix.os }}-${{ matrix.python_version:0:-2 }}-cibw-wheels | ||
|
Check failure on line 155 in .github/workflows/build_wheels.yml
|
||
| path: ./wheelhouse/*.whl | ||
| - name: Setup tmate session on failure | ||
| uses: mxschmitt/action-tmate@v3 | ||
| if: ${{ failure() }} | ||
| with: | ||
| limit-access-to-actor: true | ||
