setupapp.yml

# Jenkinsfile.monai-postmerge
name: deploy

on:
  # full tests for all the important branches
  push:
    branches:
      - main
      - releasing/*
      - feature/*
      - dev
  pull_request:
    branches:
      - dev  # temporary for testing in the PR

concurrency:
  # automatically cancel the previously triggered workflows when there's a newer version
  group: deploy-${{ github.event.pull_request.number || github.ref }}
  cancel-in-progress: true

jobs:
  # caching of these jobs:
  #   - docker-py3-pip- (shared)
  #   - ubuntu 37 38 39 310-pip-
  #   - os-latest-pip (shared)

  # coverage-py3:
  #   # if: github.repository == 'Project-MONAI/MONAI'
  #   if: ${{ false }}  # disable self-hosted job project-monai/monai#7039
  #   container:
  #     image: nvcr.io/nvidia/pytorch:22.04-py3
  #     options: --gpus all
  #   runs-on: [self-hosted, linux, x64, integration]
  #   steps:
  #   - uses: actions/checkout@v6
  #   - name: cache weekly timestamp
  #     id: pip-cache
  #     run: |
  #       echo "datew=$(date '+%Y-%V')" >> $GITHUB_OUTPUT
  #   - name: cache for pip
  #     if: ${{ startsWith(github.ref, 'refs/heads/dev') }}
  #     uses: actions/cache@v5
  #     id: cache
  #     with:
  #       path: |
  #         ~/.cache/pip
  #         ~/.cache/torch
  #       key: docker-py3-pip-${{ steps.pip-cache.outputs.datew }}
  #   - name: Install the dependencies
  #     run: |
  #       which python
  #       python -m pip install --upgrade pip wheel wheel-stub
  #       python -m pip install --upgrade torch torchvision
  #       python -m pip install -r requirements-dev.txt
  #   - name: Run unit tests report coverage
  #     env:
  #       NGC_API_KEY: ${{ secrets.NGC_API_KEY }}
  #       NGC_ORG: ${{ secrets.NGC_ORG }}
  #       NGC_TEAM: ${{ secrets.NGC_TEAM }}
  #     run: |
  #       python -m pip list
  #       git config --global --add safe.directory /__w/MONAI/MONAI
  #       git clean -ffdx
  #       df -h
  #       # python -m pip cache info
  #       nvidia-smi
  #       export CUDA_VISIBLE_DEVICES=$(python -m tests.utils | tail -n 1)
  #       echo $CUDA_VISIBLE_DEVICES
  #       trap 'if pgrep python; then pkill python; fi;' ERR
  #       python -c $'import torch\na,b=torch.zeros(1,device="cuda:0"),torch.zeros(1,device="cuda:1");\nwhile True:print(a,b)' > /dev/null &
  #       python -c "import torch; print(torch.__version__); print('{} of GPUs available'.format(torch.cuda.device_count()))"
  #       python -c 'import torch; print(torch.rand(5, 3, device=torch.device("cuda:0")))'
  #       BUILD_MONAI=1 ./runtests.sh --build --coverage --unittests --disttests  # unit tests with coverage report
  #       BUILD_MONAI=1 ./runtests.sh --build --coverage --net  # integration tests with coverage report
  #       coverage xml --ignore-errors
  #       if pgrep python; then pkill python; fi
  #     shell: bash
  #   - name: Upload coverage
  #     uses: codecov/codecov-action@v6
  #     with:
  #       fail_ci_if_error: false
  #       files: ./coverage.xml

  test-py3x:
    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: ['3.10', '3.11', '3.12']
    steps:
    - uses: actions/checkout@v6
      with:
        fetch-depth: 0
    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@v6
      with:
        python-version: ${{ matrix.python-version }}
        cache: pip
    - name: Install CPU PyTorch
      run: |
        python -m pip install --upgrade pip wheel wheel-stub
        python -m pip install torch==2.8.0 torchvision --extra-index-url https://download.pytorch.org/whl/cpu
    - name: Install the dependencies
      run: |
        find  /opt/hostedtoolcache/* -maxdepth 0 ! -name 'Python' -exec rm -rf {} \;
        python -m pip install --no-build-isolation -r requirements-min.txt  # necessary only here for some reason?
        python -m pip install --no-build-isolation -r requirements-dev.txt
    - name: Run quick tests CPU ubuntu
      env:
        NGC_API_KEY: ${{ secrets.NGC_API_KEY }}
        NGC_ORG: ${{ secrets.NGC_ORG }}
        NGC_TEAM: ${{ secrets.NGC_TEAM }}
        TRANSFORMERS_VERBOSITY: error  # stifle huggingface transformers warnings about aliases
      run: |
        python -m pip list
        python -c 'import torch; print(torch.__version__); print(torch.rand(5,3))'
        BUILD_MONAI=0 python -m pip install --no-build-isolation -e .
        ./runtests.sh --coverage --quick --unittests --disttests

        # TODO: update installation process to allow testing with and without compiled libraries as intended here
        #BUILD_MONAI=0 ./runtests.sh --build --coverage --quick --unittests
        #./runtests.sh --clean
        #BUILD_MONAI=1 ./runtests.sh --build --coverage --quick --min
        coverage xml --ignore-errors
    - name: Upload coverage
      uses: codecov/codecov-action@v6
      with:
        fail_ci_if_error: false
        files: ./coverage.xml

  install:  # pip install from github url, the default branch is dev
    runs-on: ubuntu-latest
    steps:
    - name: Set up Python 3.10
      uses: actions/setup-python@v6
      with:
        python-version: '3.10'
    - name: Install CPU PyTorch
      run: |
        python -m pip install torch==2.8.0 torchvision --extra-index-url https://download.pytorch.org/whl/cpu
    - name: Install the default branch no build (dev branch only)
      if: github.ref == 'refs/heads/dev'
      run: |
        BUILD_MONAI=0 pip install git+https://github.com/Project-MONAI/MONAI#egg=MONAI
        python -c 'import monai; monai.config.print_config()'
        cd $(python -c 'import monai; import os; print(os.path.dirname(monai.__file__))')
        ls .
        pip uninstall -y monai
    - name: Install the default branch with build (dev branch only)
      if: github.ref == 'refs/heads/dev'
      run: |
        find  /opt/hostedtoolcache/* -maxdepth 0 ! -name 'Python' -exec rm -rf {} \;
        BUILD_MONAI=1 pip install git+https://github.com/Project-MONAI/MONAI#egg=MONAI
        python -c 'import monai; monai.config.print_config()'
    - name: Get the test cases (dev branch only)
      if: github.ref == 'refs/heads/dev'
      uses: actions/checkout@v6
      with:
        ref: dev
    - name: Quick test installed (dev branch only)
      if: github.ref == 'refs/heads/dev'
      run: |
        cd $GITHUB_WORKSPACE
        rm -rf monai/
        ls -al .
        python -m pip install -r requirements-min.txt
        python -m tests.min_tests
      env:
        QUICKTEST: True