chore: update C core #1567
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| # Name cannot contain commas because of setup-emsdk job | |
| name: Build and test | |
| on: [push, pull_request] | |
| env: | |
| CIBW_ENVIRONMENT_PASS_LINUX: PYTEST_TIMEOUT | |
| CIBW_TEST_COMMAND: "cd {project} && pip install --prefer-binary '.[test]' && python -m pytest -v tests" | |
| CIBW_SKIP: "cp36-* cp37-* pp37-*" | |
| PYTEST_TIMEOUT: 60 | |
| MACOSX_DEPLOYMENT_TARGET: "10.9" | |
| jobs: | |
| build_wheel_linux: | |
| name: Build wheels on Linux (${{ matrix.wheel_arch }}) | |
| runs-on: ubuntu-20.04 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| wheel_arch: [x86_64, i686] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v5 | |
| name: Install Python | |
| with: | |
| python-version: '3.8' | |
| - name: Build wheels (manylinux) | |
| uses: pypa/[email protected] | |
| env: | |
| CIBW_BEFORE_BUILD: "yum install -y flex bison libxml2-devel zlib-devel cairo-devel && pip install -U cmake pip wheel && python setup.py build_c_core" | |
| CIBW_BUILD: "*-manylinux_${{ matrix.wheel_arch }}" | |
| # Skip tests for Python 3.10 onwards because SciPy does not have | |
| # 32-bit wheels for Linux | |
| CIBW_TEST_SKIP: "cp310-manylinux_i686 cp311-manylinux_i686 cp312-manylinux_i686" | |
| - name: Build wheels (musllinux) | |
| uses: pypa/[email protected] | |
| env: | |
| CIBW_BEFORE_BUILD: "apk add flex bison libxml2-dev zlib-dev cairo-dev && pip install -U cmake pip wheel && python setup.py build_c_core" | |
| CIBW_BUILD: "*-musllinux_${{ matrix.wheel_arch }}" | |
| CIBW_TEST_COMMAND: "cd {project} && pip install --prefer-binary '.[test-musl]' && python -m pytest -v tests" | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: ./wheelhouse/*.whl | |
| build_wheel_linux_aarch64_manylinux: | |
| name: Build wheels on Linux (aarch64/manylinux) | |
| runs-on: ubuntu-20.04 | |
| if: github.event_name == 'push' && startsWith(github.event.ref, 'refs/tags') | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - name: Set up QEMU | |
| id: qemu | |
| uses: docker/setup-qemu-action@v3 | |
| - name: Build wheels (manylinux) | |
| uses: pypa/[email protected] | |
| env: | |
| CIBW_BEFORE_BUILD: "yum install -y flex bison libxml2-devel zlib-devel cairo-devel && pip install -U cmake pip wheel && python setup.py build_c_core" | |
| CIBW_ARCHS_LINUX: aarch64 | |
| CIBW_BUILD: "*-manylinux_aarch64" | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: ./wheelhouse/*.whl | |
| build_wheel_linux_aarch64_musllinux: | |
| name: Build wheels on Linux (aarch64/musllinux) | |
| runs-on: ubuntu-20.04 | |
| if: github.event_name == 'push' && startsWith(github.event.ref, 'refs/tags') | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - name: Set up QEMU | |
| id: qemu | |
| uses: docker/setup-qemu-action@v3 | |
| - name: Build wheels (musllinux) | |
| uses: pypa/[email protected] | |
| env: | |
| CIBW_BEFORE_BUILD: "apk add flex bison libxml2-dev zlib-dev cairo-dev && pip install -U cmake pip wheel && python setup.py build_c_core" | |
| CIBW_ARCHS_LINUX: aarch64 | |
| CIBW_BUILD: "*-musllinux_aarch64" | |
| CIBW_TEST_COMMAND: "cd {project} && pip install --prefer-binary '.[test-musl]' && python -m pytest -v tests" | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: ./wheelhouse/*.whl | |
| build_wheel_macos: | |
| name: Build wheels on macOS (${{ matrix.wheel_arch }}) | |
| runs-on: macos-latest | |
| env: | |
| LLVM_VERSION: "14.0.5" | |
| strategy: | |
| matrix: | |
| include: | |
| - cmake_arch: x86_64 | |
| wheel_arch: x86_64 | |
| - cmake_arch: arm64 | |
| cmake_extra_args: -DF2C_EXTERNAL_ARITH_HEADER=../../../etc/arith_apple_m1.h -DIEEE754_DOUBLE_ENDIANNESS_MATCHES=ON | |
| wheel_arch: arm64 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - name: Cache installed C core | |
| id: cache-c-core | |
| uses: actions/cache@v4 | |
| with: | |
| path: vendor/install | |
| key: C-core-cache-${{ runner.os }}-${{ matrix.cmake_arch }}-llvm${{ env.LLVM_VERSION }}-${{ hashFiles('.git/modules/**/HEAD') }} | |
| - name: Cache C core dependencies | |
| id: cache-c-deps | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/local | |
| key: deps-cache-v2-${{ runner.os }}-${{ matrix.cmake_arch }}-llvm${{ env.LLVM_VERSION }} | |
| - uses: actions/setup-python@v5 | |
| name: Install Python | |
| with: | |
| python-version: '3.8' | |
| - name: Install OS dependencies | |
| if: steps.cache-c-core.outputs.cache-hit != 'true' || steps.cache-c-deps.outputs.cache-hit != 'true' # Only needed when building the C core or libomp | |
| run: | |
| brew install ninja autoconf automake libtool cmake | |
| - name: Install OpenMP library | |
| if: steps.cache-c-deps.outputs.cache-hit != 'true' | |
| run: | | |
| wget https://github.com/llvm/llvm-project/releases/download/llvmorg-$LLVM_VERSION/openmp-$LLVM_VERSION.src.tar.xz | |
| tar xf openmp-$LLVM_VERSION.src.tar.xz | |
| cd openmp-$LLVM_VERSION.src | |
| mkdir build && cd build | |
| cmake .. -DCMAKE_INSTALL_PREFIX=$HOME/local -DLIBOMP_ENABLE_SHARED=OFF -DCMAKE_OSX_ARCHITECTURES=${{ matrix.cmake_arch }} | |
| cmake --build . | |
| cmake --install . | |
| - name: Build wheels | |
| uses: pypa/[email protected] | |
| env: | |
| CIBW_ARCHS_MACOS: "${{ matrix.wheel_arch }}" | |
| CIBW_BEFORE_BUILD: "python setup.py build_c_core" | |
| CIBW_ENVIRONMENT: "LDFLAGS=-L$HOME/local/lib" | |
| IGRAPH_CMAKE_EXTRA_ARGS: -DCMAKE_OSX_ARCHITECTURES=${{ matrix.cmake_arch }} ${{ matrix.cmake_extra_args }} -DCMAKE_PREFIX_PATH=$HOME/local | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: ./wheelhouse/*.whl | |
| build_wheel_wasm: | |
| name: Build wheels for WebAssembly | |
| runs-on: ubuntu-20.04 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v5 | |
| name: Install Python | |
| with: | |
| python-version: '3.11.2' | |
| - name: Install OS dependencies | |
| run: | |
| sudo apt install ninja-build cmake flex bison | |
| - uses: mymindstorm/setup-emsdk@v14 | |
| with: | |
| version: '3.1.45' | |
| actions-cache-folder: 'emsdk-cache' | |
| - name: Build wheel | |
| run: | | |
| pip install pyodide-build==0.24.1 | |
| python3 scripts/fix_pyodide_build.py | |
| pyodide build | |
| - name: Setup upterm session | |
| uses: lhotari/action-upterm@v1 | |
| if: ${{ failure() }} | |
| with: | |
| limit-access-to-actor: true | |
| wait-timeout-minutes: 5 | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: ./dist/*.whl | |
| build_wheel_win: | |
| name: Build wheels on Windows (${{ matrix.cmake_arch }}) | |
| runs-on: windows-2019 | |
| strategy: | |
| matrix: | |
| include: | |
| - cmake_arch: Win32 | |
| wheel_arch: win32 | |
| vcpkg_arch: x86 | |
| - cmake_arch: x64 | |
| wheel_arch: win_amd64 | |
| vcpkg_arch: x64 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v5 | |
| name: Install Python | |
| with: | |
| python-version: '3.8' | |
| - name: Cache installed C core | |
| id: cache-c-core | |
| uses: actions/cache@v4 | |
| with: | |
| path: vendor/install | |
| key: C-core-cache-${{ runner.os }}-${{ matrix.cmake_arch }}-${{ hashFiles('.git/modules/**/HEAD') }} | |
| - name: Cache VCPKG | |
| uses: actions/cache@v4 | |
| with: | |
| path: C:/vcpkg/installed/ | |
| key: vcpkg-${{ runner.os }}-${{ matrix.vcpkg_arch }} | |
| - name: Install build dependencies | |
| if: steps.cache-c-core.outputs.cache-hit != 'true' # Only needed when building the C core | |
| run: choco install winflexbison3 ninja | |
| - name: Install VCPKG libraries | |
| run: | | |
| %VCPKG_INSTALLATION_ROOT%\vcpkg.exe integrate install | |
| %VCPKG_INSTALLATION_ROOT%\vcpkg.exe install libxml2:${{ matrix.vcpkg_arch }}-windows-static-md | |
| shell: cmd | |
| - name: Build wheels | |
| uses: pypa/[email protected] | |
| env: | |
| CIBW_BEFORE_BUILD: "python setup.py build_c_core" | |
| CIBW_BUILD: "*-${{ matrix.wheel_arch }}" | |
| CIBW_TEST_COMMAND: "cd /d {project} && pip install --prefer-binary \".[test]\" && python -m pytest tests" | |
| # Skip tests for Python 3.10 onwards because SciPy does not have | |
| # 32-bit wheels for Windows | |
| CIBW_TEST_SKIP: "cp310-win32 cp311-win32 cp312-win32" | |
| IGRAPH_CMAKE_EXTRA_ARGS: -DCMAKE_BUILD_TYPE=RelWithDebInfo -DVCPKG_TARGET_TRIPLET=${{ matrix.vcpkg_arch }}-windows-static-md -DCMAKE_TOOLCHAIN_FILE=c:/vcpkg/scripts/buildsystems/vcpkg.cmake -A ${{ matrix.cmake_arch }} | |
| IGRAPH_EXTRA_LIBRARY_PATH: C:/vcpkg/installed/${{ matrix.vcpkg_arch }}-windows-static-md/lib/ | |
| IGRAPH_STATIC_EXTENSION: True | |
| IGRAPH_EXTRA_LIBRARIES: libxml2,lzma,zlib,iconv,charset | |
| IGRAPH_EXTRA_DYNAMIC_LIBRARIES: wsock32,ws2_32 | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: ./wheelhouse/*.whl | |
| build_sdist: | |
| name: Build sdist and test extra dependencies | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - name: Cache installed C core | |
| id: cache-c-core | |
| uses: actions/cache@v4 | |
| with: | |
| path: | | |
| vendor/install | |
| key: C-core-cache-${{ runner.os }}-${{ hashFiles('.git/modules/**/HEAD') }} | |
| - name: Install OS dependencies | |
| if: steps.cache-c-core.outputs.cache-hit != 'true' # Only needed when building the C core | |
| run: | |
| sudo apt install ninja-build cmake flex bison | |
| - uses: actions/setup-python@v5 | |
| name: Install Python | |
| with: | |
| python-version: '3.8' | |
| - name: Build sdist | |
| run: | | |
| python setup.py build_c_core | |
| python setup.py sdist | |
| python setup.py install | |
| - name: Test | |
| run: | | |
| pip install --prefer-binary cairocffi numpy scipy pandas networkx pytest pytest-timeout | |
| python -m pytest -v tests | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: dist/*.tar.gz | |
| # When updating 'runs-on', the ASan/UBSan library paths/versions must also be updated for LD_PRELOAD | |
| # for the "Test" step below. | |
| build_with_sanitizer: | |
| name: Build with sanitizers for debugging purposes | |
| runs-on: ubuntu-20.04 | |
| env: | |
| IGRAPH_CMAKE_EXTRA_ARGS: -DFORCE_COLORED_OUTPUT=ON | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| fetch-depth: 0 | |
| - name: Cache installed C core | |
| id: cache-c-core | |
| uses: actions/cache@v4 | |
| with: | |
| path: | | |
| vendor/build | |
| vendor/install | |
| key: C-core-build-sanitizer-v1-${{ runner.os }}-${{ hashFiles('.git/modules/vendor/source/igraph/HEAD') }} | |
| - name: Install OS dependencies | |
| if: steps.cache-c-core.outputs.cache-hit != 'true' # Only needed when building the C core | |
| run: | |
| sudo apt install ninja-build cmake flex bison | |
| - uses: actions/setup-python@v5 | |
| name: Install Python | |
| with: | |
| python-version: '3.12' | |
| - name: Install test dependencies | |
| run: | | |
| pip install --prefer-binary pytest pytest-timeout setuptools | |
| - name: Build C core | |
| env: | |
| IGRAPH_USE_SANITIZERS: 1 | |
| run: | | |
| python setup.py build_c_core | |
| - name: Build and install Python extension | |
| env: | |
| IGRAPH_USE_SANITIZERS: 1 | |
| run: | | |
| # NOTE: install calls "build" first | |
| python setup.py install | |
| # Only pytest, and nothing else should be run in this section due to the presence of LD_PRELOAD. | |
| # The ASan/UBSan library versions need to be updated when switching to a newer Ubuntu/GCC. | |
| # LD_PRELOAD needs to be specified in the "run" section to ensure that we | |
| # do not pick up memory leaks in the wrapper shell (e.g., /bin/bash) | |
| - name: Test | |
| env: | |
| ASAN_OPTIONS: "detect_stack_use_after_return=1" | |
| LSAN_OPTIONS: "suppressions=etc/lsan-suppr.txt:print_suppressions=false" | |
| run: | | |
| LD_PRELOAD=/lib/x86_64-linux-gnu/libasan.so.5:/lib/x86_64-linux-gnu/libubsan.so.1 python -m pytest --capture=sys tests |