1-pr-check.yml

name: PR checks on algorithm submission

on:
  pull_request:
    paths:
      - 'algorithms/*.yaml'
      - '.github/workflows/1-pr-check.yml'
  push:
    paths:
      - 'algorithms/*.yaml'
      - '.github/workflows/1-pr-check.yml'

jobs:

  check_yaml:
    runs-on: ubuntu-latest
    container:
      image: ghcr.io/${{ github.repository }}-algo-checks:main
      credentials:
        username: ${{ github.actor }}
        password: ${{ secrets.github_token }}
    steps:

      - uses: actions/checkout@v4

      - name: find algorithm files
        run: |
          {
            echo 'FILELIST<<EOF'
            find ./algorithms -name '*.yaml' -print
            echo EOF
          }  >> "$GITHUB_ENV"

      - name: Convert and validate using jsonschema
        run: |
          for algo in ${FILELIST}; do
            yq -o json $algo > algo.json \
            && jsonschema-cli -i algo.json "config/schema.json"
          done
          rm algo.json

  check_image:
    runs-on: ubuntu-latest
    steps:

      - uses: actions/checkout@v4

      - name: find algorithm files
        run: |
          {
            echo 'FILELIST<<EOF'
            find ./algorithms -name '*.yaml' -print
            echo EOF
          }  >> "$GITHUB_ENV"

      - name: Pull image
        run: |
          for algo in ${FILELIST}; do 
            IMAGE=$(grep '^image: ' $algo | sed 's/^image: \+//' | tr -d \'\")
            if ! docker pull $IMAGE ; then
              echo "Cannot pull image: $IMAGE"
              exit 1
            fi
          done
      - name: Check output
        run: |
          for algo in ${FILELIST}; do 
            IMAGE=$(grep '^image: ' $algo | sed 's/^image: \+//' | tr -d \'\")
            docker run -v tests/data:/data -v $PWD:/output -e INPUT=dummy.edf -e OUTPUT=out.tsv $IMAGE
            HEADER_REGEX='^onset	duration	eventType	confidence	channels	dateTime	recordingDuration$'
            if ! [[ $(head -n1 $PWD/output/out.tsv) =~ "$HEADER_REGEX" ]]; then
              echo "Output does not have the expected header"
              exit 1
            fi
            rm -f $PWD/out.tsv
          done