Gradient generation tool to support GENN models in FOQUS #795
Workflow file for this run
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| name: Checks | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - '*_rel' | |
| repository_dispatch: | |
| # to run this, send a POST API call at repos/<user>/<repo>/dispatches with the specified event_type | |
| # e.g. `gh repos/CCSI-Toolset/FOQUS/dispatches -F event_type=ci_run_tests` | |
| types: [ci_run_tests] | |
| workflow_dispatch: | |
| pull_request: | |
| types: | |
| - opened | |
| # ready_for_review occurs when a draft PR is turned to non-draft | |
| - ready_for_review | |
| # synchronize occurs whenever commits are pushed to the PR branch | |
| - synchronize | |
| defaults: | |
| run: | |
| # the -l flag is needed for the Conda environment to be activated properly | |
| shell: bash -l {0} | |
| env: | |
| FOQUS_CONDA_ENV_NAME_DEV: ccsi-foqus-dev | |
| PYTEST_BASETEMP: .pytest | |
| jobs: | |
| code-formatting: | |
| name: Code formatting (Black) | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: actions/setup-python@v2 | |
| with: | |
| python-version: '3.8' | |
| - name: Install Black | |
| # unlike the other jobs, we don't need to install FOQUS and/or all the dev dependencies, | |
| # but we still want to specify the Black version to use in requirements-dev.txt for local development | |
| # so we extract the relevant line and pass it to a simple `pip install` | |
| run: | | |
| # we store the version | |
| black_requirement="$(grep '^black.*$' requirements-dev.txt)" | |
| pip --no-cache-dir install --progress-bar off "$black_requirement" | |
| - name: Run Black to verify that the committed code is formatted | |
| run: | | |
| black --check . | |
| pytest: | |
| name: pytest (py${{ matrix.python-version }}/${{ matrix.os }}) | |
| needs: [code-formatting] | |
| runs-on: ${{ matrix.os-version }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: | |
| - '3.7' | |
| - '3.8' | |
| - '3.9' | |
| # - '3.10' | |
| os: | |
| - linux | |
| - win64 | |
| - macos | |
| include: | |
| - os: macos | |
| os-version: macos-12 | |
| - os: linux | |
| os-version: ubuntu-20.04 | |
| - os: win64 | |
| os-version: windows-2019 | |
| - python-version: "3.8" # avoid uploading coverage for full matrix | |
| use_coverage: true | |
| - python-version: "3.8" # this is to avoid installing optional dependencies in all environments | |
| optional-dependencies: tensorflow sympy torch scikit-learn | |
| env: | |
| # uncomment this to debug Qt initialization errors | |
| # QT_DEBUG_PLUGINS: '1' | |
| MPLBACKEND: AGG | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| activate-environment: ${{ env.FOQUS_CONDA_ENV_NAME_DEV }} | |
| python-version: ${{ matrix.python-version }} | |
| - name: Set up FOQUS | |
| uses: ./.github/actions/setup-foqus | |
| with: | |
| pip-install-target: -r requirements-dev.txt ${{ matrix.optional-dependencies }} | |
| - name: Set common pytest flags | |
| run: | |
| echo 'PYTEST_ADDOPTS=--pyargs foqus_lib --verbose --color=yes --basetemp "${{ env.PYTEST_BASETEMP }}"' >> $GITHUB_ENV | |
| - name: Set up GUI test environment (Linux) | |
| if: contains(matrix.os, 'linux') | |
| run: | | |
| echo "QT_QPA_PLATFORM=minimal" >> $GITHUB_ENV | |
| - name: Run pytest (default options) | |
| if: "! matrix.use_coverage" | |
| run: | | |
| pytest foqus_lib/ | |
| - name: Run pytest (coverage) | |
| if: matrix.use_coverage | |
| run: | | |
| pytest foqus_lib/ --cov=./ --cov-report=xml --cov-report=term | |
| - name: Upload pytest artifacts | |
| uses: actions/upload-artifact@v2 | |
| if: always() | |
| with: | |
| # TODO decide if we need a separate upload for each Python version | |
| name: pytest-dir-${{ matrix.os }}-py${{ matrix.python-version }} | |
| path: ${{ env.PYTEST_BASETEMP }} | |
| retention-days: 7 | |
| - name: Upload coverage report to Codecov | |
| if: matrix.use_coverage | |
| uses: codecov/codecov-action@v2 | |
| pylint: | |
| name: pylint (py${{ matrix.python-version }}) | |
| runs-on: ubuntu-20.04 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: | |
| - '3.7' | |
| - '3.8' | |
| - '3.9' | |
| # - '3.10' | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| activate-environment: ${{ env.FOQUS_CONDA_ENV_NAME_DEV }} | |
| python-version: ${{ matrix.python-version }} | |
| - name: Set up FOQUS | |
| uses: ./.github/actions/setup-foqus | |
| with: | |
| pip-install-target: -r requirements-dev.txt | |
| - name: Run pylint | |
| run: | | |
| pylint --rcfile=.pylint/pylintrc --disable=W,C,R,I foqus_lib/ | |
| docs: | |
| name: Build docs | |
| runs-on: ubuntu-20.04 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| activate-environment: ${{ env.FOQUS_CONDA_ENV_NAME_DEV }} | |
| python-version: ${{ matrix.python-version }} | |
| - name: Set up FOQUS | |
| uses: ./.github/actions/setup-foqus | |
| with: | |
| pip-install-target: -r requirements-dev.txt | |
| - name: Build docs | |
| run: | | |
| cd docs/ | |
| make CLOPTS="-qW --keep-going" clean dummy |