gpu-tests.yml

name: Run GPU nf-tests
on:
  push:
    branches:
      # https://docs.renovatebot.com/key-concepts/automerge/#branch-vs-pr-automerging
      - "renovate/**" # branches Renovate creates
  pull_request:
    branches: [master]
    paths:
      - ".github/workflows/gpu-tests.yml"
      - "modules/nf-core/parabricks/**"
  merge_group:
    types: [checks_requested]
    branches: [master]
  workflow_dispatch:
    inputs:
      runners:
        description: "Runners to test on"
        type: choice
        options:
          - "ubuntu-latest"
          - "self-hosted"
        default: "self-hosted"

# Cancel if a newer run is started
concurrency:
  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
  cancel-in-progress: true

env:
  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
  NFT_VER: "0.9.2"
  NXF_ANSI_LOG: false
  NXF_SINGULARITY_CACHEDIR: ${{ github.workspace }}/.singularity
  NXF_SINGULARITY_LIBRARYDIR: ${{ github.workspace }}/.singularity
  NXF_VER: "24.04.4"

jobs:
  nf-test-gpu:
    runs-on: "gpu"
    name: "GPU | ${{ matrix.profile }} | ${{ matrix.shard }}"
    strategy:
      fail-fast: false
      matrix:
        shard: [1, 2]
        # TODO Pass these in from GitHub PR trigger events
        include:
          - path: modules/nf-core/parabricks/applybqsr
            profile: [docker_self_hosted, singularity]
          - path: modules/nf-core/parabricks/fq2bam
            profile: [docker_self_hosted, singularity]
          - path: modules/nf-core/parabricks/fq2bammeth
            profile: [docker_self_hosted, singularity]
    env:
      NXF_ANSI_LOG: false
      TOTAL_SHARDS: 2

    steps:
      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4
        with:
          fetch-depth: 0
      - name: Run nf-test Action
        uses: ./.github/actions/nf-test-action
        env:
          SENTIEON_ENCRYPTION_KEY: ${{ secrets.SENTIEON_ENCRYPTION_KEY }}
          SENTIEON_LICENSE_MESSAGE: ${{ secrets.SENTIEON_LICENSE_MESSAGE }}
          SENTIEON_LICSRVR_IP: ${{ secrets.SENTIEON_LICSRVR_IP }}
          SENTIEON_AUTH_MECH: "GitHub Actions - token"
        with:
          path: ${{ matrix.path }}
          profile: ${{ matrix.profile }},gpu
          shard: ${{ matrix.shard }}
          total_shards: ${{ env.TOTAL_SHARDS }}
          # TODO Pass a "gpu" tag in case there's cpu only tests