.github/workflows/build.yml

name: Build

on:
  push:
    branches: 
      - '*'
  pull_request:
    branches: 
      - '*'
  workflow_dispatch:

jobs:
  build:
    runs-on: ubuntu-20.04
    steps:
      - uses: actions/checkout@v1
      - name: Set up Python 3.8
        uses: actions/setup-python@v2
        with:
          python-version: 3.8

      - name: Install dependencies
        run: |
          pip install --upgrade pip
          pip install wheel setuptools

      - name: Build wheel
        run: python setup.py bdist_wheel --universal

      - name: Upload Python wheel
        uses: actions/upload-artifact@v2
        with:
          name: Python wheel
          path: ${{github.workspace}}/dist/lungtumormask-*.whl
          if-no-files-found: error

  test:
    needs: build
    runs-on: ${{ matrix.os }}
    strategy:
      matrix:
        os: [windows-2019, ubuntu-20.04, macos-11]
        python-version: ["3.8", "3.9", "3.10"]

    steps:
      - uses: actions/checkout@v1
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v2
        with:
          python-version: ${{ matrix.python-version }}

      - name: Download artifact
        uses: actions/download-artifact@v3
        with:
          name: "Python wheel"

      - name: Install software
        run: pip install -U --find-links=${{github.workspace}} lungtumormask

      - name: Download test data
        run: |
          pip install --upgrade --no-cache-dir wget
          mkdir samples
          cd samples
          python -m wget https://github.com/VemundFredriksen/LungTumorMask/releases/download/0.0.1/lung_001.nii.gz

      - name: Test CLI
        run: lungtumormask --help

      - name: Test inference
        run: lungtumormask samples/lung_001.nii.gz mask_001.nii.gz --threshold 0.3 --lung-filter --radius 3 --batch-size 8