CI #43
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| name: CI | |
| on: | |
| workflow_dispatch: | |
| schedule: | |
| - cron: "35 4 */6 * *" # Every 6 days. | |
| pull_request: | |
| push: | |
| jobs: | |
| build-iqtree: | |
| name: Fetch or Build IQ-TREE 2 Static Library on ${{matrix.os}} | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-13, macos-14] # Intel linux, Intel Mac, ARM Mac | |
| steps: | |
| - uses: "actions/checkout@v4" | |
| with: | |
| fetch-depth: 0 | |
| submodules: recursive | |
| - name: Get IQ-TREE 2 SHA | |
| run: | | |
| cd iqtree2 | |
| IQ_TREE_2_SHA=$(git rev-parse HEAD) | |
| echo "IQ_TREE_2_SHA=${IQ_TREE_2_SHA}" >> $GITHUB_ENV | |
| - uses: actions/cache@v4 | |
| id: cache | |
| with: | |
| key: libiqtree-${{ matrix.os }}-${{ env.IQ_TREE_2_SHA }} | |
| path: src/piqtree2/_libiqtree/libiqtree2.a | |
| lookup-only: true | |
| - name: Build IQ-TREE | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| run: | | |
| if [[ "${{ matrix.os }}" == "ubuntu-latest" ]]; then | |
| sudo ./build_tools/before_all_linux.sh | |
| else | |
| ./build_tools/before_all_mac.sh | |
| fi | |
| tests: | |
| name: Run Tests with Python ${{matrix.python-version}} on ${{matrix.os}} | |
| needs: build-iqtree | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-13, macos-14] # Intel linux, Intel Mac, ARM Mac | |
| python-version: ["3.10", "3.11", "3.12"] | |
| steps: | |
| - uses: "actions/checkout@v4" | |
| with: | |
| fetch-depth: 0 | |
| submodules: recursive | |
| - uses: "actions/setup-python@v5" | |
| with: | |
| python-version: "${{ matrix.python-version }}" | |
| - uses: actions/cache/restore@v4 | |
| with: | |
| key: libiqtree-${{ matrix.os }}-${{ env.IQ_TREE_2_SHA }} | |
| path: src/piqtree2/_libiqtree/libiqtree2.a | |
| fail-on-cache-miss: true | |
| - name: Run Nox Testing | |
| run: | | |
| pip install nox | |
| nox -s test-${{ matrix.python-version }} -- --cov --cov-report=lcov:${{matrix.os}}-${{matrix.python-version}}.lcov --cov-report=term --cov-append --durations=20 | |
| - name: Coveralls Parallel | |
| if: matrix.os != 'macos-13' | |
| uses: coverallsapp/github-action@v2 | |
| with: | |
| parallel: true | |
| github-token: ${{secrets.github_token}} | |
| flag-name: run-${{matrix.python-version}}-${{matrix.os}} | |
| file: "${{matrix.os}}-${{matrix.python-version}}.lcov" | |
| upload-coverage: | |
| name: "Finish Coveralls" | |
| needs: tests | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Coveralls Finished | |
| uses: coverallsapp/github-action@v2 | |
| with: | |
| github-token: ${{ secrets.github_token }} | |
| parallel-finished: true | |
| type_check: | |
| name: "Type Check" | |
| needs: build-iqtree | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| python-version: ["3.12"] | |
| os: [ubuntu-latest] | |
| steps: | |
| - uses: "actions/checkout@v4" | |
| with: | |
| fetch-depth: 0 | |
| - uses: "actions/setup-python@v5" | |
| with: | |
| python-version: "${{ matrix.python-version }}" | |
| - uses: actions/cache/restore@v4 | |
| with: | |
| key: libiqtree-${{ matrix.os }}-${{ env.IQ_TREE_2_SHA }} | |
| path: src/piqtree2/_libiqtree/libiqtree2.a | |
| fail-on-cache-miss: true | |
| - name: "Run Type Checking for ${{ matrix.python-version }}" | |
| run: | | |
| pip install nox | |
| nox -s type_check-${{ matrix.python-version }} | |