Migrate component create to nf test #3155
Workflow file for this run
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| name: Lint tools code formatting | |
| on: | |
| push: | |
| branches: | |
| - dev | |
| pull_request: | |
| release: | |
| types: [published] | |
| # Cancel if a newer run is started | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| EditorConfig: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-node@v3 | |
| - name: Install editorconfig-checker | |
| run: npm install -g editorconfig-checker | |
| # Run editor config check only on files not covered by a linter | |
| - name: Run ECLint check | |
| run: editorconfig-checker -exclude README.md $(git ls-files | grep -v 'test\|.py\|md\|json\|yml\|yaml\|html\|css\|Makefile') | |
| Prettier: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-node@v3 | |
| - name: Install Prettier | |
| run: npm install -g prettier | |
| - name: Run Prettier --check | |
| run: prettier --check ${GITHUB_WORKSPACE} | |
| PythonBlack: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Check code lints with Black | |
| uses: psf/black@stable | |
| # If the above check failed, post a comment on the PR explaining the failure | |
| - name: Post PR comment | |
| if: failure() | |
| uses: mshick/add-pr-comment@v1 | |
| with: | |
| message: | | |
| ## Python linting (`black`) is failing | |
| To keep the code consistent with lots of contributors, we run automated code consistency checks. | |
| To fix this CI test, please run: | |
| * Install [`black`](https://black.readthedocs.io/en/stable/): `pip install black` | |
| * Fix formatting errors in your pipeline: `black .` | |
| Once you push these changes the test should pass, and you can hide this comment :+1: | |
| We highly recommend setting up Black in your code editor so that this formatting is done automatically on save. Ask about it on Slack for help! | |
| Thanks again for your contribution! | |
| repo-token: ${{ secrets.GITHUB_TOKEN }} | |
| allow-repeats: false | |
| isort: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out source-code repository | |
| uses: actions/checkout@v3 | |
| - name: Set up Python 3.11 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.11 | |
| - name: python-isort | |
| uses: isort/isort-action@v1.1.0 | |
| with: | |
| isortVersion: "latest" | |
| requirementsFiles: "requirements.txt requirements-dev.txt" | |
| static-type-check: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: actions/setup-python@v3 | |
| with: | |
| python-version: 3.11 | |
| cache: "pip" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip -r requirements-dev.txt | |
| pip install -e . | |
| - name: Setup conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| python-version: 3.11 | |
| - name: Install nf-test | |
| run: | | |
| conda install -c bioconda nf-test | |
| - name: Get Python changed files | |
| id: changed-py-files | |
| uses: tj-actions/changed-files@v23 | |
| with: | |
| files: | | |
| *.py | |
| **/*.py | |
| - name: Run if any of the listed files above is changed | |
| if: steps.changed-py-files.outputs.any_changed == 'true' | |
| run: mypy ${{ steps.changed-py-files.outputs.all_changed_files }} |