nf-test.yml

name: Run nf-test
on:
  push:
    branches:
      # https://docs.renovatebot.com/key-concepts/automerge/#branch-vs-pr-automerging
      - "renovate/**" # branches Renovate creates
  pull_request:
    branches: [dev]
  workflow_dispatch:
    inputs:
      runners:
        description: "Runners to test on"
        type: choice
        options:
          - "ubuntu-latest"
          - "self-hosted"
        default: "ubuntu-latest"

# 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_DIFF: "pdiff"
  NFT_DIFF_ARGS: "--line-numbers --width 120 --expand-tabs=2"
  # renovate: datasource=github-releases depName=askimed/nf-test versioning=semver
  NFT_VER: "0.9.2"
  NFT_WORKDIR: "~"
  NXF_ANSI_LOG: false
  NXF_SINGULARITY_CACHEDIR: ${{ github.workspace }}/.singularity
  NXF_SINGULARITY_LIBRARYDIR: ${{ github.workspace }}/.singularity

jobs:
  nf-test-changes:
    name: nf-test-changes
    runs-on: ${{ github.event.inputs.runners || github.run_number > 1 && 'ubuntu-latest' || 'self-hosted' }}
    outputs:
      shard: ${{ steps.set-shards.outputs.shard }}
      total_shards: ${{ steps.set-shards.outputs.total_shards }}
    steps:
      - name: Clean Workspace # Purge the workspace in case it's running on a self-hosted runner
        run: |
          ls -la ./
          rm -rf ./* || true
          rm -rf ./.??* || true
          ls -la ./
      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4
        with:
          fetch-depth: 0

      - name: get number of shards
        id: set-shards
        uses: ./.github/actions/get-shards
        env:
          NFT_VER: ${{ env.NFT_VER }}
        with:
          max_shards: 7

      - name: debug
        run: |
          echo ${{ steps.set-shards.outputs.shard }}
          echo ${{ steps.set-shards.outputs.total_shards }}

  nf-test:
    runs-on: ${{ github.event.inputs.runners || github.run_number > 1 && 'ubuntu-latest' || 'self-hosted' }}
    name: "${{ matrix.profile }} | ${{ matrix.NXF_VER }} | ${{ matrix.shard }}/${{ needs.nf-test-changes.outputs.total_shards }}"
    needs: [nf-test-changes]
    if: ${{ needs.nf-test-changes.outputs.total_shards != '0' }}
    strategy:
      fail-fast: false
      matrix:
        shard: ${{ fromJson(needs.nf-test-changes.outputs.shard) }}
        profile: [conda, docker, singularity]
        isMaster:
          - ${{ github.base_ref == 'master' }}
        # Exclude conda and singularity on dev
        exclude:
          - isMaster: false
            profile: "conda"
          - isMaster: false
            profile: "singularity"
        NXF_VER:
          # renovate: datasource=github-releases depName=nextflow/nextflow versioning=semver
          - "24.10.2"
          - "latest-everything"
    env:
      NXF_ANSI_LOG: false
      TOTAL_SHARDS: ${{ needs.nf-test-changes.outputs.total_shards }}

    steps:
      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4
        with:
          fetch-depth: 0

      - name: Run nf-test
        uses: ./.github/actions/nf-test
        env:
          NFT_DIFF: ${{ env.NFT_DIFF }}
          NFT_DIFF_ARGS: ${{ env.NFT_DIFF_ARGS }}
          NFT_WORKDIR: ${{ env.NFT_WORKDIR }}
          SENTIEON_AUTH_MECH: "GitHub Actions - token"
          SENTIEON_ENCRYPTION_KEY: ${{ secrets.SENTIEON_ENCRYPTION_KEY }}
          SENTIEON_LICENSE_MESSAGE: ${{ secrets.SENTIEON_LICENSE_MESSAGE }}
          SENTIEON_LICSRVR_IP: ${{ secrets.SENTIEON_LICSRVR_IP }}
        with:
          profile: ${{ matrix.profile }}
          shard: ${{ matrix.shard }}
          total_shards: ${{ env.TOTAL_SHARDS }}

  confirm-pass:
    runs-on: ${{ github.event.inputs.runners || github.run_number > 1 && 'ubuntu-latest' || 'self-hosted' }}
    needs: [nf-test]
    if: always()
    steps:
      - name: One or more tests failed
        if: ${{ contains(needs.*.result, 'failure') }}
        run: exit 1

      - name: One or more tests cancelled
        if: ${{ contains(needs.*.result, 'cancelled') }}
        run: exit 1

      - name: All tests ok
        if: ${{ contains(needs.*.result, 'success') }}
        run: exit 0

      - name: debug-print
        if: always()
        run: |
          echo "::group::DEBUG: `needs` Contents"
          echo "DEBUG: toJSON(needs) = ${{ toJSON(needs) }}"
          echo "DEBUG: toJSON(needs.*.result) = ${{ toJSON(needs.*.result) }}"
          echo "::endgroup::"

      - name: Clean Workspace # Purge the workspace in case it's running on a self-hosted runner
        if: always()
        run: |
          ls -la ./
          rm -rf ./* || true
          rm -rf ./.??* || true
          ls -la ./