ci.yml

# This is a basic workflow to help you get started with Actions

name: CI

# Controls when the action will run.
on:
  # Triggers the workflow on push or pull request events but only for the master branch
  push:
    branches: [ master ]
  pull_request:
    branches: '*'

  # Allows you to run this workflow manually from the Actions tab
  workflow_dispatch:

# A workflow run is made up of one or more jobs that can run sequentially or in parallel
jobs:
  # This workflow contains a single job called "build"
  build:
    # The type of runner that the job will run on
    runs-on: ubuntu-latest

    # Steps represent a sequence of tasks that will be executed as part of the job
    steps:
      # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
      - uses: actions/checkout@v4

      - name: Install Python 3
        uses: actions/setup-python@v4
        with:
          python-version: 3.8.18

      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          pip install -r dataset_conversion/requirements.txt
          git clone https://github.com/ivadomed/MetricsReloaded.git
          cd MetricsReloaded
          python -m pip install .

      - name: Run tests with unittest
        run: |
          python -m unittest tests/test_convert_bids_to_nnUNetV2.py
          python -m unittest tests/test_compute_metrics_reloaded.py