Merge branch 'materialsproject:master' into master #10
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| # Runs the complete test suite incl. many external command line dependencies (like Openbabel) | |
| # as well as the pymatgen.ext package. Coverage is computed based on this workflow. | |
| name: Tests | |
| on: | |
| push: | |
| branches: [master] | |
| paths-ignore: ["**/*.md", docs/**] | |
| pull_request: | |
| branches: [master] | |
| paths-ignore: ["**/*.md", docs/**] | |
| release: | |
| types: [published] | |
| workflow_dispatch: | |
| inputs: | |
| task: | |
| type: choice | |
| options: [tests, release] | |
| default: tests | |
| description: Only run tests or release a new version of pymatgen to PyPI after tests pass. | |
| permissions: | |
| contents: read | |
| jobs: | |
| test: | |
| # prevent this action from running on forks | |
| if: github.repository == 'materialsproject/pymatgen' | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| # pytest-split automatically distributes work load so parallel jobs finish in similar time | |
| os: [ubuntu-latest, windows-latest] | |
| python-version: ["3.8", "3.11"] | |
| split: [1, 2, 3, 4, 5, 6, 7, 8, 9, 10] | |
| # include/exclude is meant to maximize CI coverage of different platforms and python | |
| # versions while minimizing the total number of jobs. We run all pytest splits with the | |
| # oldest supported python version (currently 3.8) on windows (seems most likely to surface | |
| # errors) and with newest version (currently 3.11) on ubuntu (to get complete and speedy | |
| # coverage on unix). Also sample some splits on macos for all python versions | |
| exclude: | |
| - os: windows-latest | |
| python-version: "3.11" | |
| - os: ubuntu-latest | |
| python-version: "3.8" | |
| include: | |
| - os: macos-latest | |
| python-version: "3.8" | |
| split: 1 | |
| - os: macos-latest | |
| python-version: "3.9" | |
| split: 2 | |
| - os: macos-latest | |
| python-version: "3.10" | |
| split: 3 | |
| - os: macos-latest | |
| python-version: "3.11" | |
| split: 4 | |
| runs-on: ${{ matrix.os }} | |
| env: | |
| PMG_MAPI_KEY: ${{ secrets.PMG_MAPI_KEY }} | |
| MPLBACKEND: Agg # https://github.com/orgs/community/discussions/26434 | |
| PMG_TEST_FILES_DIR: ${{ github.workspace }}/tests/files | |
| GULP_LIB: ${{ github.workspace }}/cmd_line/gulp/Libraries | |
| PMG_VASP_PSP_DIR: ${{ github.workspace }}/tests/files | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| cache: pip | |
| cache-dependency-path: setup.py | |
| - name: Copy CLIs to bin | |
| if: runner.os == 'Linux' | |
| # This is the way to update env variables in a way that persist for the entire job. | |
| run: | | |
| sudo cp cmd_line/gulp/Linux_64bit/* /usr/local/bin/ | |
| - name: Install Bader | |
| if: runner.os == 'Linux' | |
| run: | | |
| wget http://theory.cm.utexas.edu/henkelman/code/bader/download/bader_lnx_64.tar.gz | |
| tar xvzf bader_lnx_64.tar.gz | |
| sudo mv bader /usr/local/bin/ | |
| continue-on-error: true | |
| - name: Install Enumlib | |
| if: runner.os == 'Linux' | |
| run: | | |
| git clone --recursive https://github.com/msg-byu/enumlib.git | |
| cd enumlib/symlib/src | |
| export F90=gfortran | |
| make | |
| cd ../../src | |
| make enum.x | |
| sudo mv enum.x /usr/local/bin/ | |
| cd .. | |
| sudo cp aux_src/makeStr.py /usr/local/bin/ | |
| continue-on-error: true | |
| - name: Install Packmol | |
| if: runner.os == 'Linux' | |
| run: | | |
| wget -O packmol.tar.gz https://github.com/m3g/packmol/archive/refs/tags/v20.14.2.tar.gz | |
| tar xvzf packmol.tar.gz | |
| export F90=gfortran | |
| cd packmol-20.14.2 | |
| ./configure | |
| make | |
| sudo mv packmol /usr/local/bin/ | |
| cd .. | |
| rm -rf .coverage* | |
| continue-on-error: true | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip wheel | |
| python -m pip install numpy cython packaging | |
| python -m pip install -e '.[dev,optional]' | |
| - name: pytest split ${{ matrix.split }} | |
| # to update the test durations, do pip install pytest-split and run | |
| # pytest --store-durations --durations-path tests/files/.pytest-split-durations | |
| # and commit the results (requires pip install pytest-split) | |
| run: | | |
| pytest --cov=pymatgen --splits 10 --group ${{ matrix.split }} --durations-path tests/files/.pytest-split-durations tests | |
| - name: Upload coverage | |
| # Only upload coverage for ubuntu py3.11 runs. | |
| if: matrix.os == 'ubuntu-latest' && matrix.python-version == '3.11' | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: coverage-${{ matrix.split }} | |
| path: .coverage | |
| coverage: | |
| needs: test | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Download coverage artifacts | |
| uses: actions/download-artifact@v3 | |
| - name: Combine coverage | |
| run: | | |
| pip install coverage[toml] | |
| find . -name "*.pyc" -delete | |
| for i in {1..10}; do mv coverage-$i/.coverage .coverage.$i; rm -rf coverage-$i; done | |
| coverage combine | |
| - name: Upload coverage reports to Codecov | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| verbose: true | |
| build_sdist: | |
| if: github.event_name == 'release' || (github.event_name == 'workflow_dispatch' && inputs.task == 'release') | |
| needs: test | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| name: Install Python | |
| with: | |
| python-version: "3.10" | |
| - run: | | |
| python -m pip install build | |
| pip install -e . | |
| - name: Build sdist | |
| run: python -m build --sdist | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| path: dist/*.tar.gz | |
| build_wheels: | |
| if: github.event_name == 'release' || (github.event_name == 'workflow_dispatch' && inputs.task == 'release') | |
| needs: test | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-latest, windows-latest] | |
| python-version: ["38", "39", "310", "311"] | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Build wheels | |
| uses: pypa/[email protected] | |
| env: | |
| CIBW_BUILD: cp${{ matrix.python-version }}-* | |
| - name: Save artifact | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| path: ./wheelhouse/*.whl | |
| release: | |
| needs: [build_wheels, build_sdist] | |
| if: github.event_name == 'release' || (github.event_name == 'workflow_dispatch' && inputs.task == 'release') | |
| runs-on: ubuntu-latest | |
| permissions: | |
| # For pypi trusted publishing | |
| id-token: write | |
| steps: | |
| - name: Set up Python 3.11 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.11 | |
| - name: Get build artifacts | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: artifact | |
| path: dist | |
| - name: Publish to PyPi | |
| uses: pypa/gh-action-pypi-publish@release/v1 | |
| with: | |
| skip-existing: true | |
| verbose: true |