code_coverage.yml

name: Code Coverage

on:
  push:
    paths:
      - "GENetLib/*.py"
      - "pytest/*.py"
      - ".github/workflows/code_coverage.yml"
  pull_request:
    paths:
      - "GENetLib/*.py"
      - "pytest/*.py"
      - ".github/workflows/code_coverage.yml"
  workflow_dispatch:

jobs:
  codecovPy:
    name: Codecov workflow
    runs-on: windows-latest
    env:
      PYTHON: "3.9"
    steps:
      - uses: actions/checkout@v3
        with:
          submodules: recursive
      - name: Set up Python
        uses: actions/setup-python@v4
        with:
          python-version: 3.9
      - name: Install GENetLib and dependencies
        run: |
          pip install .
          pip install pytest coverage codecov
      - name: Generate coverage report
        run: |
            coverage run -m pytest
            coverage xml -o coverage.xml
      - name: Filter coverage report
        run: |
            python filter_coverage.py
      - name: Upload coverage to Codecov
        uses: codecov/codecov-action@v3
        with:
          token: ${{ secrets.CODECOV_TOKEN }}
          files: ./coverage_filtered.xml
          verbose: true