fuzzy-testing.yml

# Copyright (C) 2024 Roberto Rossini (roberros@uio.no)
# SPDX-License-Identifier: MIT

name: Run fuzzy tests

on:
  push:
    branches: [main]
    paths:
      - ".github/workflows/fuzzy-testing.yml"
      - "cmake/**"
      - "src/**"
      - "test/scripts/fuzzer.py"
      - "CMakeLists.txt"
      - "conanfile.py"
      - "pyproject.toml"

  pull_request:
    paths:
      - "cmake/**"
      - "src/**"
      - "test/scripts/fuzzer.py"
      - "CMakeLists.txt"
      - "conanfile.py"
      - "pyproject.toml"

  schedule:
    # Run weekly
    - cron: "15 3 * * 0"

  workflow_dispatch:
    inputs:
      duration:
        description: "Test duration in seconds"
        required: true
        default: "600"
        type: string

      resolution:
        description: "Matrix resolution to use for testing"
        required: true
        default: "random"
        type: string

# https://stackoverflow.com/a/72408109
concurrency:
  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
  cancel-in-progress: true

defaults:
  run:
    shell: bash

jobs:
  build-project:
    runs-on: ubuntu-latest
    strategy:
      fail-fast: false
      matrix:
        include:
          - {
              dataset: "4DNFIYECESRC",
              format: "cool",
              normalization: "NONE",
              bin-type: "fixed",
            }
          - {
              dataset: "4DNFIYECESRC",
              format: "cool",
              normalization: "weight",
              bin-type: "fixed",
            }
          - {
              dataset: "4DNFIYECESRC",
              format: "cool",
              normalization: "VC",
              bin-type: "fixed",
            }
          - {
              dataset: "4DNFIYECESRC",
              format: "cool",
              normalization: "NONE",
              bin-type: "variable",
            }
          - {
              dataset: "4DNFIYECESRC",
              format: "hic8",
              normalization: "NONE",
              bin-type: "fixed",
            }
          - {
              dataset: "4DNFIYECESRC",
              format: "hic8",
              normalization: "KR",
              bin-type: "fixed",
            }
          - {
              dataset: "4DNFIYECESRC",
              format: "hic9",
              normalization: "NONE",
              bin-type: "fixed",
            }
          - {
              dataset: "4DNFIYECESRC",
              format: "hic9",
              normalization: "VC",
              bin-type: "fixed",
            }

    container:
      image: ghcr.io/paulsengroup/ci-docker-images/ubuntu-24.04-cxx-clang-19
      options: "--user=root"

    env:
      CCACHE_DISABLE: "1"
      CONAN_HOME: "/opt/conan/"
      HICTK_CI: "1"

    steps:
      - name: Clone hictkpy
        uses: actions/checkout@v4

      - name: Fix permissions
        run: |
          chown -R $(id -u):$(id -g) $PWD

      - name: Generate cache key
        id: cache-key
        run: |
          hash="${{ hashFiles('conanfile.py') }}"

          echo "key=fuzzer-$hash" >> $GITHUB_OUTPUT

      - name: Install Python
        run: |
          apt-get update
          apt-get install -y python3.12 python3.12-dev

      - name: Restore Conan cache
        id: cache-conan
        uses: actions/cache/restore@v4
        with:
          key: conan-${{ steps.cache-key.outputs.key }}
          path: ${{ env.CONAN_HOME }}/p

      - name: Clean Conan cache (pre-build)
        if: steps.cache-conan.outputs.cache-hit != 'true'
        run: |
          conan cache clean "*" --build
          conan cache clean "*" --download
          conan cache clean "*" --source
          conan remove --confirm "*"

      - name: Build and install
        run: pip install --verbose '.[all]'

      - name: Clean Conan cache (post-build)
        if: steps.cache-conan.outputs.cache-hit != 'true'
        run: |
          conan cache clean "*" --build
          conan cache clean "*" --download
          conan cache clean "*" --source

      - name: Save Conan cache
        uses: actions/cache/save@v4
        if: steps.cache-conan.outputs.cache-hit != 'true'
        with:
          key: conan-${{ steps.cache-key.outputs.key }}
          path: ${{ env.CONAN_HOME }}/p

      - name: Install test dependencies
        run: |
          pip install --no-cache-dir 'cooler==0.10.*' 'numpy<2'

      - name: Detect CI type
        id: ci-type
        run: |
          if git log --format=%B -n 1 ${{ github.event.after }} | grep -qF '[ci full]'; then
            echo "type=full" >> $GITHUB_OUTPUT
          else
            echo "type=short" >> $GITHUB_OUTPUT
          fi

      - name: Prepare for test
        id: test-params
        run: |
          duration=120
          if [[ ${{ github.event_name }} == 'workflow_dispatch' ]]; then
            duration='${{ inputs.duration }}'
          elif [[ '${{ steps.ci-type.outputs.type }}' == 'full' ]]; then
            duration=3600
          fi

          resolution=50000
          if [[ ${{ github.event_name }} == 'workflow_dispatch' ]]; then
            if [[ '${{ inputs.resolution }}' == 'random' ]]; then
              resolution="$(
                python3 -c 'import random; import sys; print(random.choice([int(x) for x in sys.argv[1:]]))' \
                1000 5000 10000 50000 100000 500000
              )"
            else
              resolution='${{ inputs.resolution }}'
            fi
          fi

          if [[ '${{ matrix.bin-type }}' == variable ]]; then
            resolution=0
          fi

          2>&1 echo "Duration: ${duration}"
          2>&1 echo "Resolution: ${resolution}"

          echo "duration=$duration" | tee -a "$GITHUB_OUTPUT"
          echo "resolution=$resolution" | tee -a "$GITHUB_OUTPUT"

      - name: Clone hictk
        uses: actions/checkout@v4
        with:
          repository: "paulsengroup/hictk"
          path: hictk

      - name: Download test datasets
        run: |
          hictk/test/fuzzer/scripts/download_test_datasets.py \
            hictk/test/fuzzer/test_files.json \
            . \
            --format cool "${{ matrix.format }}" \
            --resolution "${{ steps.test-params.outputs.resolution }}" \
            --dataset "${{ matrix.dataset }}" \
            --nproc 2

      - name: Run test (df)
        run: |
          test/scripts/fuzzer.py \
            --resolution ${{ steps.test-params.outputs.resolution }} \
            --duration '${{ steps.test-params.outputs.duration }}' \
            --normalization ${{ matrix.normalization }} \
            --nproc $(nproc) \
            --format df \
            *".${{ matrix.format }}" \
            *.cool

      - name: Run test (numpy)
        run: |
          test/scripts/fuzzer.py \
            --resolution ${{ steps.test-params.outputs.resolution }} \
            --duration '${{ steps.test-params.outputs.duration }}' \
            --normalization ${{ matrix.normalization }} \
            --nproc $(nproc) \
            --format numpy \
            *".${{ matrix.format }}" \
            *.cool

      - name: Run test (coo)
        run: |
          test/scripts/fuzzer.py \
            --resolution ${{ steps.test-params.outputs.resolution }} \
            --duration '${{ steps.test-params.outputs.duration }}' \
            --normalization ${{ matrix.normalization }} \
            --nproc $(nproc) \
            --format csr \
            *".${{ matrix.format }}" \
            *.cool

  fuzzy-testing-status-check:
    name: Status Check (fuzzy-testing)
    if: ${{ always() }}
    runs-on: ubuntu-latest
    needs:
      - build-project

    steps:
      - name: Collect job results
        if: needs.build-project.result != 'success'
        run: exit 1