Coverage test #1498
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| --- | |
| name: Coverage test | |
| defaults: | |
| run: | |
| shell: bash | |
| env: | |
| CFLAGS: -Og | |
| on: | |
| push: | |
| branches: [main] | |
| paths: | |
| - '**.py' | |
| - '**.ipynb' | |
| pull_request: | |
| paths: | |
| - '**.py' | |
| - '**.ipynb' | |
| schedule: | |
| # only once every 4 days | |
| # We can always force run this. | |
| - cron: '37 10 */4 * *' | |
| workflow_dispatch: | |
| inputs: | |
| branch: | |
| description: 'Which branch to test' | |
| required: false | |
| default: 'main' | |
| marks: | |
| description: 'Which marks to test' | |
| required: false | |
| default: '' | |
| verbose: | |
| description: 'Run pytest with -vvv' | |
| required: false | |
| type: boolean | |
| jobs: | |
| # Define a few jobs that can be runned | |
| lint: | |
| uses: ./.github/workflows/linter.yml | |
| runnable: | |
| if: | | |
| github.event_name == 'schedule' | |
| && github.actor != 'dependabot[bot]' | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| ref: '${{ github.event.inputs.branch }}' | |
| - run: test -n $(git rev-list --after="1 week" --max-count=1 ${{ github.sha }}) | |
| test: | |
| needs: [lint, runnable] | |
| if: | | |
| always() && | |
| contains(needs.lint.result, 'success') && | |
| (contains(needs.runnable.result, 'success') || contains(needs.runnable.result, 'skipped')) | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| python-version: ['3.9', '3.13'] | |
| full-test: [true, false] | |
| minimal-dep: [true, false] | |
| os: [ubuntu-latest, macos-13, macos-latest] | |
| exclude: | |
| # only full test suite on 3.13 | |
| - python-version: '3.13' | |
| full-test: false | |
| # no minimal dependency on 3.13 | |
| - python-version: '3.13' | |
| minimal-dep: true | |
| # minimal dependency on ARM does not make sense (wheels not present) | |
| - os: macos-latest | |
| minimal-dep: true | |
| # only run full test suite for minimal-dependency checks | |
| - full-test: false | |
| minimal-dep: true | |
| steps: | |
| - name: Checkout sisl | |
| uses: actions/checkout@v4 | |
| with: | |
| ref: '${{ github.event.inputs.branch }}' | |
| # The files submodule is required for tests purposes | |
| submodules: ${{ matrix.full-test }} | |
| # the 'files' submodule uses lfs | |
| lfs: ${{ matrix.full-test }} | |
| - name: Ensure fortran | |
| uses: fortran-lang/setup-fortran@v1 | |
| with: | |
| compiler: gcc | |
| version: 11 | |
| - name: Print-out commit information | |
| id: info | |
| run: | | |
| echo "branch: ${{ github.event.inputs.branch }}" | |
| echo "hash: ${{ github.sha }}" | |
| echo "python-version: ${{ matrix.python-version }}" | |
| # Put stuff in the environment | |
| # | |
| # Test everything including LSF files submodule? | |
| if [[ "${{ matrix.full-test }}" == "true" ]]; then | |
| echo "sisl_extras=test,viz" >> $GITHUB_OUTPUT | |
| else | |
| echo "sisl_extras=test" >> $GITHUB_OUTPUT | |
| fi | |
| # Test minimal versioning? | |
| if [[ "${{ matrix.minimal-dep }}" == "true" ]]; then | |
| echo "sisl_install_packages='numpy==1.21.*' 'scipy==1.6.*' 'xarray==0.21.*'" >> $GITHUB_OUTPUT | |
| else | |
| echo "sisl_install_packages=" >> $GITHUB_OUTPUT | |
| fi | |
| - name: Python installation | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Upgrade pip | |
| run: | | |
| python -m pip install --progress-bar=off --upgrade pip | |
| - name: Python minimal versions | |
| if: ${{ matrix.minimal-dep }} | |
| run: | | |
| python -m pip install --progress-bar=off -v ${{ steps.info.outputs.sisl_install_packages }} | |
| - name: Install sisl + dependencies | |
| env: | |
| SKBUILD_CMAKE_ARGS: -DWITH_COVERAGE:bool=true;-DWITH_LINE_DIRECTIVES:bool=true | |
| CC: gcc | |
| FC: gfortran | |
| run: | | |
| python -m pip install --progress-bar=off -v .[${{ steps.info.outputs.sisl_extras }}] \ | |
| ${{ steps.info.outputs.sisl_install_packages }} | |
| - name: sisl debug info | |
| run: | | |
| python -c 'from sisl._debug_info import * ; print_debug_info()' | |
| - name: sisl import test | |
| run: | | |
| sgeom --help | |
| stoolbox atom-plot --help | |
| - name: sisl tests | |
| env: | |
| SISL_NUM_PROCS: 1 | |
| OMP_NUM_THREADS: 1 | |
| SISL_FILES_TESTS: ${{ github.workspace }}/files/tests | |
| run: | | |
| ls -al | |
| if [[ "${{ github.event.inputs.marks }}" == "" ]]; then | |
| ADD_FLAGS="" | |
| else | |
| ADD_FLAGS="-m ${{ github.event.inputs.marks }}" | |
| fi | |
| if [[ "${{ github.event.inputs.verbose }}" == "true" ]]; then | |
| ADD_FLAGS="$ADD_FLAGS -vvv" | |
| fi | |
| ADD_TOOLS="" | |
| for tool in btd models ; do | |
| ADD_TOOLS="$ADD_TOOLS sisl_toolbox.$tool" | |
| done | |
| for tool in atom minimizer ; do | |
| ADD_TOOLS="$ADD_TOOLS sisl_toolbox.siesta.$tool" | |
| done | |
| for tool in poisson ; do | |
| ADD_TOOLS="$ADD_TOOLS sisl_toolbox.transiesta.$tool" | |
| done | |
| # Try to enable code-coverage in the tests | |
| coverage run -m pytest --pyargs sisl $ADD_FLAGS $ADD_TOOLS | |
| ls -al | |
| - name: Upload code-coverage | |
| if: ${{ github.event.inputs.marks == '' }} | |
| uses: codecov/codecov-action@v5 | |
| with: | |
| verbose: true | |
| token: ${{ secrets.CODECOV_TOKEN }} |