build-test-package.yml

name: Build, test, package

on: [push,pull_request]

jobs:
  test-python:
    runs-on: ubuntu-20.04
    strategy:
      max-parallel: 2
      matrix:
        python-version: ["3.6", "3.7", "3.9"]

        include:
          - flake8-python-git-tag: ""
          - pooch-python-git-tag: ""
          - pytest-python-git-tag: ""

    steps:
      - uses: actions/checkout@v2
      - name: 'Free up disk space'
        run: |
          # Workaround for https://github.com/actions/virtual-environments/issues/709
          df -h
          sudo apt-get clean
          sudo rm -rf "/usr/local/share/boost"
          sudo rm -rf "$AGENT_TOOLSDIRECTORY"
          df -h

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

      - name: Install Python dependencies
        run: |
          sudo apt update
          sudo apt install openslide-tools python3-openslide
          python -m pip install --upgrade pip setuptools wheel
          pip install 'flake8${{ matrix.flake8-python-git-tag }}' 'pooch${{ matrix.pooch-python-git-tag }}' 'pytest${{ matrix.pytest-python-git-tag }}'
          pip install --upgrade 'large-image[bioformats,ometiff,openjpeg,openslide,tiff]' 'scikit_image' --find-links https://girder.github.io/large_image_wheels
          pip install --upgrade typing-extensions

      - name: Install histomics_stream
        run: |
          pip install .[tensorflow,torch,zarr]

      - name: Lint with flake8
        run: |
          # stop the build if there are Python syntax errors or undefined names
          flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
          # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
          flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics

      - name: Test with pytest
        run: |
          cd test
          pytest
        shell: bash

  build-n-publish:
    name: Build and publish Python 🐍 distributions 📦 to PyPI
    runs-on: ubuntu-20.04
    steps:
    - uses: actions/checkout@master
    - name: Set up Python "3.9"
      uses: actions/setup-python@v1
      with:
        python-version: "3.9"
    - name: Install pypa/build
      run: >-
        python -m pip install build --user
    - name: Build a binary wheel and a source tarball
      run: >-
        python -m build --sdist --wheel --outdir dist/ .
    - name: Publish distribution 📦 to PyPI
      if: github.event_name == 'push' && startsWith(github.event.ref, 'refs/tags')
      uses: pypa/gh-action-pypi-publish@master
      with:
        password: ${{ secrets.PYPI_API_TOKEN }}