doc: Remove autodoc-process-signature hook #262
Workflow file for this run
This file contains hidden or 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: PEtab | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - 'release*' | |
| pull_request: | |
| branches: | |
| - main | |
| merge_group: | |
| workflow_dispatch: | |
| jobs: | |
| build: | |
| name: PEtab SciML Testsuite | |
| runs-on: ubuntu-latest | |
| env: | |
| ENABLE_GCOV_COVERAGE: TRUE | |
| strategy: | |
| matrix: | |
| python-version: ["3.12"] | |
| steps: | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v6 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - uses: actions/checkout@v5 | |
| with: | |
| fetch-depth: 20 | |
| # todo, update after https://github.com/sebapersson/petab_sciml_testsuite/issues/14 is merged | |
| - name: Download PEtab SciML test suite | |
| run: | | |
| git clone --depth 1 --branch main \ | |
| https://github.com/FFroehlich/petab_sciml_testsuite \ | |
| tests/sciml/testsuite | |
| - name: Install apt dependencies | |
| uses: ./.github/actions/install-apt-dependencies | |
| # install dependencies | |
| - name: apt | |
| run: | | |
| sudo apt-get update \ | |
| && sudo apt-get install -y python3-venv | |
| - run: | | |
| echo "${HOME}/.local/bin/" >> $GITHUB_PATH | |
| # install AMICI | |
| - name: Install python package | |
| run: scripts/installAmiciSource.sh | |
| - name: Install petab | |
| run: | | |
| source ./venv/bin/activate \ | |
| && pip3 install wheel pytest shyaml pytest-cov | |
| # retrieve test models | |
| - name: Download and install PEtab SciML | |
| run: | | |
| source ./venv/bin/activate \ | |
| && python -m pip install git+https://github.com/petab-dev/petab_sciml.git@main#subdirectory=src/python \ | |
| - name: Install petab | |
| run: | | |
| source ./venv/bin/activate \ | |
| && python3 -m pip uninstall -y petab \ | |
| && python3 -m pip install git+https://github.com/petab-dev/libpetab-python.git@sciml \ | |
| - name: Run PEtab SciML testsuite | |
| run: | | |
| source ./venv/bin/activate \ | |
| && pytest --cov-report=xml:coverage_petab_sciml.xml \ | |
| --cov=amici tests/sciml/test_sciml.py | |
| - name: Codecov | |
| if: (github.event_name == 'pull_request' || github.repository_owner == 'AMICI-dev') && github.actor != 'dependabot[bot]' | |
| uses: codecov/codecov-action@v5 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| file: coverage_petab_sciml.xml | |
| flags: petab_sciml | |
| fail_ci_if_error: true |