pytest.yml

name: Pytest

on:
  workflow_dispatch:

jobs:
  build:
    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: ["3.10"]
    steps:
      - uses: actions/checkout@v3
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v4
        with:
          python-version: ${{ matrix.python-version }}
      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          pip install ruff pytest
          if [ -f convertPheno_server/requirements.txt ];
          then pip install -r convertPheno_server/requirements.txt; fi
      - name: Lint with ruff
        run: |
          # stop the build if there are Python syntax errors or undefined names
          ruff -- --format=github --select=E9,F63,F7,F82 --target-version=py37 .
          # default set of ruff rules with GitHub Annotations
          ruff -- --format=github --target-version=py37 .
      - name: Test with pytest
        run: |
          echo "" > convertPheno_server/.env
          make -C convertPheno_server unit-test
      - name: Upload coverage reports to Codecov
        uses: codecov/codecov-action@v3
        with:
          files: ./convertPheno_server/tests/reports/coverage/coverage.xml