fixed some bugs for CL image (QC) and alignment bugs #764
Workflow file for this run
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| name: Test | |
| on: [push, pull_request] | |
| jobs: | |
| check: | |
| if: github.event_name != 'pull_request' || !contains('OWNER,MEMBER,COLLABORATOR', github.event.pull_request.author_association) | |
| runs-on: ubuntu-latest | |
| name: Check | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.x' | |
| - name: set PYSHA | |
| run: echo "PYSHA=$(python -VV | sha256sum | cut -d' ' -f1)" >> $GITHUB_ENV | |
| - uses: actions/cache@v3 | |
| with: | |
| path: ~/.cache/pre-commit | |
| key: pre-commit|${{ env.PYSHA }}|${{ hashFiles('.pre-commit-config.yaml') }} | |
| - name: dependencies | |
| run: pip install -U pre-commit | |
| - uses: reviewdog/action-setup@v1 | |
| - if: github.event_name == 'push' || github.event_name == 'pull_request' | |
| name: comment | |
| run: | | |
| if [[ $EVENT == pull_request ]]; then | |
| REPORTER=github-pr-review | |
| else | |
| REPORTER=github-check | |
| fi | |
| pre-commit run -a todo | reviewdog -efm="%f:%l: %m" -name=TODO -tee -reporter=$REPORTER -filter-mode nofilter | |
| pre-commit run -a flake8 | reviewdog -f=pep8 -name=flake8 -tee -reporter=$REPORTER -filter-mode nofilter | |
| env: | |
| REVIEWDOG_GITHUB_API_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| EVENT: ${{ github.event_name }} | |
| - run: SKIP=mbeautify pre-commit run -a --show-diff-on-failure | |
| test: | |
| if: github.event_name != 'pull_request' || !contains('OWNER,MEMBER,COLLABORATOR', github.event.pull_request.author_association) | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python: [3.7, 3.11] | |
| name: Test py${{ matrix.python }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python }} | |
| - run: pip install -U -e .[dev] | |
| - run: pytest | |
| - uses: codecov/codecov-action@v3 | |
| cuda: | |
| if: github.event_name != 'pull_request' || !contains('OWNER,MEMBER,COLLABORATOR', github.event.pull_request.author_association) | |
| runs-on: [self-hosted, python, matlab, cuda] | |
| strategy: | |
| matrix: | |
| python: [3.8] | |
| name: CUDA py${{ matrix.python }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Run setup-python | |
| run: setup-python -p${{ matrix.python }} miutil scikit-build cmake ninja | |
| - name: Install | |
| run: pip install -U --no-binary nimpa,nipet -e .[dev,niftypet] | |
| - run: pytest | |
| - uses: codecov/codecov-action@v3 | |
| - name: Post Run setup-python | |
| run: setup-python -p${{ matrix.python }} -Dr | |
| if: ${{ always() }} | |
| deploy: | |
| needs: [check, test, cuda] | |
| name: PyPI Deploy | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.x' | |
| - id: dist | |
| uses: casperdcl/deploy-pypi@v2 | |
| with: | |
| build: true | |
| gpg_key: ${{ secrets.GPG_KEY }} | |
| password: ${{ secrets.PYPI_TOKEN }} | |
| upload: ${{ github.event_name == 'push' && startsWith(github.ref, 'refs/tags') }} | |
| - if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags') | |
| name: Release | |
| run: | | |
| changelog=$(git log --pretty='format:%d%n- %s%n%b---' $(git tag --sort=v:refname | tail -n2 | head -n1)..HEAD) | |
| tag="${GITHUB_REF#refs/tags/}" | |
| gh release create --title "AmyPET $tag alpha" --draft --notes "$changelog" "$tag" dist/${{ steps.dist.outputs.whl }} dist/${{ steps.dist.outputs.whl_asc }} | |
| env: | |
| GH_TOKEN: ${{ secrets.GH_TOKEN || github.token }} |