New API #48
Workflow file for this run
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] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-22.04 | |
| env: | |
| GITHUB_EVENT_NAME: ${{ github.event_name }} | |
| NXF_ANSI_LOG: false | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ["3.9"] | |
| timeout-minutes: 50 | |
| steps: | |
| - name: Checkout main | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Checkout lndocs | |
| uses: actions/checkout@v3 | |
| with: | |
| repository: laminlabs/lndocs | |
| ssh-key: ${{ secrets.READ_LNDOCS }} | |
| path: lndocs | |
| ref: main | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| cache: "pip" | |
| cache-dependency-path: ".github/workflows/build.yml" # See dependencies below | |
| - name: Install Nextflow | |
| uses: nf-core/setup-nextflow@v1 | |
| with: | |
| version: "latest-stable" | |
| - name: Cache Nextflow output | |
| uses: actions/cache@v2 | |
| with: | |
| path: docs/guide/nextflow_rna_seq/rna-seq-results | |
| key: ${{ runner.os }}-nextflow-rna-seq-results | |
| - uses: actions/cache@v3 | |
| with: | |
| path: ~/.cache/pre-commit | |
| key: pre-commit-${{ runner.os }}-${{ hashFiles('.pre-commit-config.yaml') }} | |
| - name: Cache postgres | |
| id: cache-postgres | |
| uses: actions/cache@v3 | |
| with: | |
| path: ~/postgres.tar | |
| key: cache-postgres-0 | |
| - name: Cache postgres miss | |
| if: steps.cache-postgres.outputs.cache-hit != 'true' | |
| run: docker pull postgres:latest && docker image save postgres:latest --output ~/postgres.tar | |
| - name: Cache postgres use | |
| if: steps.cache-postgres.outputs.cache-hit == 'true' | |
| run: docker image load --input ~/postgres.tar | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install -U pip | |
| pip install -U laminci | |
| - uses: aws-actions/configure-aws-credentials@v2 | |
| with: | |
| aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
| aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
| aws-region: eu-central-1 | |
| - run: nox -s lint | |
| - run: nox -s build | |
| - uses: codecov/codecov-action@v2 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| - 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 }} |