pythonpackage.yml

name: Stable tests

on:
  push:
    branches: [ '*' ]
    tags: [ '*' ]
  pull_request:
    branches: [ master, 'maint/*', 'next' ]
  schedule:
    - cron: '0 0 * * *'

defaults:
  run:
    shell: bash

concurrency:
  group: python-${{ github.ref }}
  cancel-in-progress: true

permissions:
  contents: read

jobs:
  check_if_skip:
    runs-on: ubuntu-latest
    outputs:
      commit_message: ${{ steps.get_commit_message.outputs.commit_message }}
    steps:
      - name: Get repo
        uses: actions/checkout@v3
        with:
          ref: ${{ github.event.pull_request.head.sha }}
      - name: Print head git commit message
        id: get_commit_message
        run: |
          if [[ -z "$COMMIT_MSG" ]]; then
            COMMIT_MSG=$(git show -s --format=%s)
          fi
          echo $COMMIT_MSG
          echo "::set-output name=commit_message::$COMMIT_MSG"
        env:
          COMMIT_MSG: ${{ github.event.head_commit.message }}

  build:
    needs: check_if_skip
    if: "!contains(needs.check_if_skip.outputs.commit_message, '[skip ci]')"
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v3
      with:
        fetch-depth: 0
    - name: Display Python version
      run: python -c "import sys; print(sys.version)"
    - name: Build smriprep
      run: pipx run build
    - name: Check distributions
      run: pipx run twine check dist/*
    - uses: actions/upload-artifact@v3
      with:
        name: dist
        path: dist/

  test:
    needs: [build]
    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: [3.9, "3.10", "3.11"]
        install: [repo]
        include:
          - python-version: "3.11"
            install: sdist
          - python-version: "3.11"
            install: wheel
          - python-version: "3.11"
            install: editable

    env:
      INSTALL_TYPE: ${{ matrix.install }}

    steps:
    - uses: actions/checkout@v3
      if: matrix.install == 'repo' || matrix.install == 'editable'
    - name: Fetch packages
      uses: actions/download-artifact@v3
      with:
        name: dist
        path: dist/
      if: matrix.install == 'sdist' || matrix.install == 'wheel'
    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@v4
      with:
        python-version: ${{ matrix.python-version }}
    - name: Select archive
      run: |
        if [ "$INSTALL_TYPE" = "sdist" ]; then
          ARCHIVE=$( ls dist/*.tar.gz )
        elif [ "$INSTALL_TYPE" = "wheel" ]; then
          ARCHIVE=$( ls dist/*.whl )
        elif [ "$INSTALL_TYPE" = "repo" ]; then
          ARCHIVE="."
        elif [ "$INSTALL_TYPE" = "editable" ]; then
          ARCHIVE="-e ."
        fi
        echo "ARCHIVE=$ARCHIVE" >> $GITHUB_ENV
    - name: Install package
      run: python -m pip install $ARCHIVE
    - name: Install test dependencies
      run: python -m pip install "smriprep[tests]"
    - name: Run tests
      run: pytest -sv --doctest-modules --cov smriprep --pyargs smriprep
    - uses: codecov/codecov-action@v3
      name: Submit to CodeCov

  flake8:
    if: "!contains(github.event.head_commit.message, '[skip ci]')"
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v3
    - run: pipx run flake8 smriprep