test.yml

name: Testing

on: [push, pull_request]
env:
  EMG_CONFIG: ${{ github.workspace }}/ci/configuration.yaml

jobs:
  build:

    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: [3.8, 3.9]

    steps:
    - uses: actions/checkout@v3

    - name: 🐍 - Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@v4
      with:
        python-version: ${{ matrix.python-version }}

    - name: 💾 Start MongoDB
      uses: supercharge/mongodb-github-action@1.3.0
      with:
        mongodb-version: 4.0.6

    - name: ⚙️ - Checking environment
      run: |
        python -V
        sudo systemctl start mysql
        mysql --version
        mysql -uroot -proot -e 'CREATE DATABASE emg;'
        mysql -uroot -proot -e "SET GLOBAL sql_mode = 'STRICT_TRANS_TABLES'"

    - name: 🔧 - Install Dependencies
      run: |
        pip install .[tests]
        pip freeze

    - name: Check for unmigrated code changes
      run: |
         python emgcli/manage.py makemigrations --noinput --check --dry-run

    - name: 🧪 - Testing
      run: |
        cat $EMG_CONFIG
        pytest

    # TODO: disabled until black formatting completed and all flake issues fixed
    # - name: Flake
    #   continue-on-error: true
    #   run: |
    #     flake8 --version
    #     flake8 -v .

    - name: 📮 - Slack Notification
      uses: rtCamp/action-slack-notify@v2
      continue-on-error: true
      if: github.ref == 'refs/heads/master' || github.ref == 'refs/heads/develop'
      env:
        SLACK_COLOR: "${{ job.status == 'success' && 'good' || 'danger' }}"
        SLACK_USERNAME: "Github Actions API"
        SLACK_ICON_EMOJI: ":octocat:"
        SLACK_TITLE: "CI API results in GitHub Actions"
        SLACK_WEBHOOK: ${{ secrets.SLACK_WEBHOOK }}
        SLACK_CHANNEL: "#metagenomics-notify"
        MSG_MINIMAL: Actions URL