aeDNA/.github/workflows/ci.yml at main · GeoGenetics/aeDNA · GitHub

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name: CI

on:
  push:
    branches:
      - main
  pull_request:

jobs:
  ################################################################################################
  # Formatting: Check formatting using Pixi
  ################################################################################################
  format:
    if: github.event.pull_request.merged != true || github.ref != 'refs/heads/main'
    permissions:
      contents: read # for actions/checkout to fetch code
    runs-on: ubuntu-latest
    steps:
      - uses: actions/checkout@v4

      - name: Install Pixi
        uses: prefix-dev/setup-pixi@v0.9.6
        with:
          environments: format
          pixi-version: v0.69.0
          cache: false
          locked: false

      - name: Run snakefmt
        run: pixi run -e format snakefmt workflow/Snakefile workflow/rules/*.smk --check --diff


  ################################################################################################
  # Testing: Run tests using Pixi
  ################################################################################################
  test:
    if: github.event.pull_request.merged != true || github.ref != 'refs/heads/main'
    strategy:
      fail-fast: false
    runs-on: ubuntu-latest
    env:
      SQL_DRIVER: sqlite

    steps:
      - uses: actions/checkout@v4
        with:
          fetch-depth: 0

      - name: Install Pixi
        uses: prefix-dev/setup-pixi@v0.9.6
        with:
          environments: test
          pixi-version: v0.69.0
          cache: false
          locked: false

      - name: Set strict conda channel priority
        run: conda config --set channel_priority strict

      - name: Run examples
        run: pixi run -e test env --chdir ./examples/ ./make_dags.sh