code_quality.yml

name: Code Quality with pylint, pytest, black

on: [push, pull_request]

jobs:
  pylint:
    runs-on: ubuntu-latest

    steps:
    - name: Check out code
      uses: actions/checkout@v3

    - name: Set up Python
      uses: actions/setup-python@v4
      with:
        python-version: '3.9'

    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        pip install -r configs/requirements.txt
        pip install pylint

    - name: Run pylint
      continue-on-error: true
      run: |
        find qDNA tools -type f -name "*.py" ! -name "__init__.py" | xargs pylint

  pytest:
    runs-on: ubuntu-latest

    steps:
    - name: Check out code
      uses: actions/checkout@v3

    - name: Set up Python
      uses: actions/setup-python@v4
      with:
        python-version: '3.9'

    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        pip install -r configs/requirements.txt
        pip install pytest

    - name: Run tests with pytest
      run: python -m pytest

  black:
    runs-on: ubuntu-latest

    steps:
    - name: Check out code
      uses: actions/checkout@v3

    - name: Set up Python
      uses: actions/setup-python@v4
      with:
        python-version: '3.9'

    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        pip install black

    - name: Run black
      continue-on-error: true
      run: black --check .