lint.yml

name: wdl-check

on:
  push:
  pull_request:
  workflow_dispatch:

jobs:
  miniwdl_check:
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v4
    - name: Set up Python
      uses: actions/setup-python@v5
      with:
        python-version: 3.9
    - name: Install miniwdl
      run: |
        python -m pip install --upgrade pip
        pip3 install miniwdl
    - name: Run miniwdl
      run: |
        EXITCODE=0
        echo "Checking WDL files using \`miniwdl check\`."
        files=$(find . -name '*.wdl')
        for file in $files; do
          echo "  [***] $file [***]"
          miniwdl check "$file"
          EXITCODE=$(($? || EXITCODE))
        done
        exit $EXITCODE
  womtool_check:
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v4
    - name: Set up Python
      uses: actions/setup-python@v5
      with:
        python-version: 3.9
    - name: Install Cromwell and Womtool
      run: |
        conda update -n base -c defaults conda
        conda install -c conda-forge cromwell
    - name: Validate wdls with Womtool
      run: |
        EXITCODE=0
        echo "Checking WDL files using \`womtool validate\`."
        files=$(find . -name '*.wdl')
        for file in $files; do
          echo "  [***] $file [***]"
          $CONDA/bin/womtool validate "$file"
          EXITCODE=$(($? || EXITCODE))
        done
        exit $EXITCODE
  sprocket-lint:
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v4
    - name: Run sprocket
      uses: stjude-rust-labs/sprocket-action@v0.5.0
      with:
        lint: true
        deny-warnings: true
        deny-notes: true