build.yml

name: build

on:
  push:
    branches:
      - main
      - develop
  pull_request:
    branches:
      - main
      - develop

jobs:
  build:
    runs-on: ubuntu-latest
    timeout-minutes: 10
    strategy:
      matrix:
        python-version: ["3.9"]

    steps:
      - uses: actions/checkout@v3
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v4
        with:
          python-version: ${{ matrix.python-version }}
          cache: "pip"
      - name: Install nextflow
        uses: nf-core/setup-nextflow@v1
      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip setuptools
          pip install .[dev,test]
      - name: Check CLI flags
        run: |
          tool_name --help
          tool_name --version
          tool_name --citation
      - name: Test
        run: |
          python -m pytest
      - name: Stub run
        run: |
          tool_name run -profile ci_stub,docker -stub