Update Synapse formation #168
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| # This workflow will install Python dependencies, run tests and lint with a single version of Python | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| name: build | |
| on: | |
| pull_request: | |
| push: | |
| branches: | |
| - main | |
| tags: | |
| - '*.*.*' | |
| env: | |
| docker_repository: sagebionetworks/synapseformation | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: [3.9, '3.10', '3.11'] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v1 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install flake8 pytest coveralls | |
| pip install . | |
| if [ -f requirements.txt ]; then pip install -r requirements.txt; fi | |
| # - name: Lint with flake8 | |
| # run: | | |
| # # stop the build if there are Python syntax errors or undefined names | |
| # flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics | |
| # # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | |
| # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics | |
| - name: Test with pytest | |
| run: | | |
| pytest tests | |
| - name: Prepare environment for coveralls | |
| run: | | |
| echo "PYTHON_ENV=$(echo py${{ matrix.python-version }} | tr -d .)" >> $GITHUB_ENV | |
| - name: Coveralls Parallel | |
| env: | |
| COVERALLS_FLAG_NAME: ${{ env.PYTHON_ENV }} | |
| COVERALLS_PARALLEL: true | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| coverage run --source=synapseformation --omit=synapseformation/__main__.py -m pytest tests/ | |
| coveralls --service=github | |
| finish-coveralls: | |
| needs: test | |
| runs-on: ubuntu-latest | |
| container: python:3-slim | |
| steps: | |
| - name: Finish Coveralls Parallel | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| pip3 install --upgrade coveralls | |
| coveralls --finish | |
| pypi: | |
| needs: [test] | |
| runs-on: ubuntu-latest | |
| if: startsWith(github.ref, 'refs/tags') | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python 3.8 | |
| uses: actions/setup-python@v1 | |
| with: | |
| python-version: 3.8 | |
| - name: Create a source distribution | |
| run: python setup.py sdist | |
| - name: Publish package to PyPI | |
| uses: pypa/gh-action-pypi-publish@release/v1 | |
| with: | |
| user: __token__ | |
| password: ${{ secrets.PYPI_API_TOKEN }} | |
| docker-build: | |
| needs: [test] | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: read | |
| packages: write | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v2 | |
| - name: Log in to the Container registry | |
| uses: docker/[email protected] | |
| if: github.event_name != 'pull_request' | |
| with: | |
| registry: ghcr.io | |
| username: ${{ github.actor }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Extract metadata (tags, labels) for Docker | |
| id: meta | |
| uses: docker/[email protected] | |
| with: | |
| images: ghcr.io/${{ github.repository }} | |
| - name: Build and push Docker image | |
| uses: docker/[email protected] | |
| with: | |
| context: . | |
| push: ${{ github.event_name != 'pull_request' }} | |
| tags: ${{ steps.meta.outputs.tags }} | |
| labels: ${{ steps.meta.outputs.labels }} |