This repository has been archived by the owner on Aug 7, 2024. It is now read-only.
✨ New ontology: ExperimentalFactor-efo-3.63 (#577) #1764
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: build | |
| on: | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main, staging] | |
| workflow_dispatch: | |
| env: | |
| BRANCH_NAME: ${{ github.head_ref || github.ref_name }} | |
| jobs: | |
| test: | |
| runs-on: ubuntu-22.04 | |
| env: | |
| GITHUB_EVENT_NAME: ${{ github.event_name }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ["3.11"] | |
| group: ["bionty-unit", "bionty-docs"] | |
| timeout-minutes: 25 | |
| steps: | |
| - name: Checkout main | |
| uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - name: Checkout lndocs | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: laminlabs/lndocs | |
| ssh-key: ${{ secrets.READ_LNDOCS }} | |
| path: lndocs | |
| ref: main | |
| - name: Setup Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Cache pre-commit | |
| uses: actions/cache@v3 | |
| with: | |
| path: ~/.cache/pre-commit | |
| key: pre-commit-${{ runner.os }}-${{ hashFiles('.pre-commit-config.yaml') }} | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install -U pip uv | |
| python -m uv pip install --system -U laminci | |
| python -m uv pip install --system rich | |
| python -m uv pip install --system ipywidgets | |
| - name: Configure AWS | |
| uses: aws-actions/configure-aws-credentials@v1 | |
| with: | |
| aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
| aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
| aws-region: eu-central-1 | |
| - name: Lint | |
| if: matrix.python-version == '3.11' && matrix.group == 'bionty-unit' | |
| run: | | |
| nox -s lint | |
| - name: Build | |
| run: | | |
| nox -s "build(group='${{ matrix.group }}')" | |
| - name: upload coverage | |
| uses: actions/upload-artifact@v2 | |
| with: | |
| name: coverage--${{ matrix.group }} | |
| path: .coverage | |
| - name: Deploy docs | |
| if: ${{ matrix.python-version == '3.11' && matrix.group == 'bionty-docs' }} | |
| id: netlify | |
| uses: nwtgck/[email protected] | |
| with: | |
| publish-dir: "_build/html" | |
| production-deploy: ${{ github.event_name == 'push' }} | |
| github-token: ${{ secrets.GITHUB_TOKEN }} | |
| enable-commit-comment: false | |
| env: | |
| NETLIFY_AUTH_TOKEN: ${{ secrets.NETLIFY_AUTH_TOKEN }} | |
| NETLIFY_SITE_ID: ${{ secrets.NETLIFY_SITE_ID }} | |
| coverage: | |
| needs: test | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| - run: | | |
| python -m pip install -U pip uv | |
| uv pip install --system coverage[toml] | |
| uv pip install --system --no-deps . | |
| - uses: actions/download-artifact@v2 | |
| - name: run coverage | |
| run: | | |
| coverage combine coverage--*/.coverage* | |
| coverage report --fail-under=0 | |
| coverage xml | |
| - uses: codecov/codecov-action@v2 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} |