test.yml

# Builds and runs pytest on ubuntu-latest
# Tests python versions >=3.8
name: Run Tests

on:
  push:
    branches: [ master ]
  pull_request:
    branches: [ master ]

  workflow_dispatch:

jobs:
  # https://github.com/actions/setup-python
  test-python3-ubuntu-latest:
    name: test py${{ matrix.python-version }} on linux
    runs-on: ubuntu-latest
    strategy:
      fail-fast: false
      matrix:
        python-version: ['3.8', '3.9']
    env:
      PYTHON: ${{ matrix.python-version }}
      OS: ubuntu

    steps:
      - uses: actions/checkout@v2

      - name: set up python
        uses: actions/setup-python@v2
        with:
          python-version: ${{ matrix.python-version }}

      - name: install dependencies
        run: |
          pip install -r requirements.txt > /dev/null
          SITE_PACKAGES=$( python -c 'import site; print(site.getsitepackages()[0])' )
          cp ./resources/biolink-config.yaml ./conf/config.yaml
          cp ./resources/ontobio-config.yaml ${SITE_PACKAGES}/ontobio/config.yaml

      - name: run behave tests
        run: |
          export PYTHONPATH=.:$PYTHONPATH
          export FLASK_USE_RELOADER=False
          python biolink/app.py &
          sleep 180
          behave -f progress3 tests/

      - name: run pytests
        run: |
          export PYTHONPATH=.:$PYTHONPATH
          pytest tests/unit/