Add R dependencies to GHAs #3
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| name: Code Style | |
| on: [push, pull_request] | |
| jobs: | |
| lint: | |
| name: "Lint Code Base" | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| with: | |
| # super-linter needs the full git history to get the | |
| # list of files that changed across commits | |
| fetch-depth: 0 | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| - name: Install fastFMM | |
| uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| packages: fastFMM | |
| dependencies: true | |
| - name: Install uv and set the python version | |
| uses: astral-sh/setup-uv@v5 | |
| with: | |
| version: "0.6.x" | |
| python-version: 3.9 | |
| - name: Install dependencies | |
| run: uv sync --extra dev | |
| - name: Check with black | |
| run: | | |
| uv run black . --check --diff | |
| - name: Lint with flake8 | |
| run: | | |
| # stop the build if there are Python syntax errors or undefined names | |
| uv run flake8 . --count --max-line-length=88 --statistics --exclude .venv | |
| - name: Run GitHub super-linter | |
| uses: github/super-linter/slim@v7 | |
| env: | |
| DEFAULT_BRANCH: main | |
| # To report GitHub Actions status checks | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| VALIDATE_ALL_CODEBASE: true | |
| VALIDATE_YAML: true | |
| VALIDATE_JSON: true | |
| VALIDATE_HTML: true | |
| VALIDATE_R: true | |
| VALIDATE_MD: true | |
| VALIDATE_BASH: true | |
| VALIDATE_DOCKER: true | |
| VALIDATE_ENV: true |