meds-etl-test.yml

name: Run MEDS-ETL tests

on:
  push:
    branches: [ "main" ]
  pull_request:
    branches: [ "main" ]

jobs:
  build:

    runs-on: ubuntu-latest

    strategy:
      matrix:
        python-version: ["3.10"]

    steps:
    - uses: actions/checkout@v3

    # Clone the MEDS-ETL repository
    - name: Clone MEDS-ETL repository
      run: git clone https://github.com/Medical-Event-Data-Standard/meds_etl.git

    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@v3
      with:
        python-version: ${{ matrix.python-version }}

    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        python -m pip install flake8 pytest

    # Install MEDS-ETL
    - name: Install MEDS-ETL
      run: |
        cd meds_etl
        python -m pip install .

    # Run MEDS-ETL tests
    - name: Run MEDS-ETL tests
      run: |
        cd meds_etl
        pytest -v