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Merge branch 'dev' into generate_heatmap_transforms
2 parents 9bbd608 + e72145c commit 6d8d136

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‎.github/workflows/codeql-analysis.yml‎

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steps:
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- name: Checkout repository
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uses: actions/checkout@v4
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uses: actions/checkout@v5
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# Initializes the CodeQL tools for scanning.
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- name: Initialize CodeQL
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uses: github/codeql-action/init@v3
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uses: github/codeql-action/init@v4
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with:
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languages: ${{ matrix.language }}
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# If you wish to specify custom queries, you can do so here or in a config file.
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BUILD_MONAI=1 ./runtests.sh --build
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- name: Perform CodeQL Analysis
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uses: github/codeql-action/analyze@v3
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uses: github/codeql-action/analyze@v4

‎.github/workflows/conda.yml‎

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minimum-size: 8GB
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maximum-size: 16GB
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disk-root: "D:"
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Clean up disk space
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run: |
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find /opt/hostedtoolcache/* -maxdepth 0 ! -name 'Python' -exec rm -rf {} \;

‎.github/workflows/cron-ngc-bundle.yml‎

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if: github.repository == 'Project-MONAI/MONAI'
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- name: cache weekly timestamp

‎.github/workflows/cron.yml‎

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options: "--gpus all"
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runs-on: [self-hosted, linux, x64, common]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: apt install
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run: |
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apt-get update
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options: "--gpus all"
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runs-on: [self-hosted, linux, x64, integration]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Install APT dependencies
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run: |
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apt-get update
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options: "--gpus all"
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runs-on: [self-hosted, linux, x64, integration]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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with:
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fetch-depth: 0
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- name: Install the dependencies
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options: "--gpus all --ipc=host"
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runs-on: [self-hosted, linux, x64, integration]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Install MONAI
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id: monai-install
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run: |

‎.github/workflows/docker.yml‎

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if: ${{ false }} # disable docker build job project-monai/monai#7450
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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# full history so that we can git describe
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with:
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ref: dev
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fetch-depth: 0
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- shell: bash
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python setup.py build
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cat build/lib/monai/_version.py
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- name: Upload version
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uses: actions/upload-artifact@v4
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uses: actions/upload-artifact@v5
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with:
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name: _version.py
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path: build/lib/monai/_version.py
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needs: versioning_dev
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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with:
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ref: dev
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- name: Download version
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uses: actions/download-artifact@v4
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uses: actions/download-artifact@v6
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with:
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name: _version.py
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- name: docker_build

‎.github/workflows/integration.yml‎

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runs-on: [self-hosted, linux, x64, command]
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steps:
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# checkout the pull request branch
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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with:
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token: ${{ secrets.PR_MAINTAIN }}
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repository: ${{ github.event.client_payload.pull_request.head.repo.full_name }}
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run: ./runtests.sh --build --net
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- name: Add reaction
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uses: peter-evans/create-or-update-comment@v4
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uses: peter-evans/create-or-update-comment@v5
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with:
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token: ${{ secrets.PR_MAINTAIN }}
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repository: ${{ github.event.client_payload.github.payload.repository.full_name }}
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runs-on: [self-hosted, linux, x64, command1]
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steps:
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# checkout the pull request branch
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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with:
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token: ${{ secrets.PR_MAINTAIN }}
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repository: ${{ github.event.client_payload.pull_request.head.repo.full_name }}
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python -m tests.test_integration_gpu_customization
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- name: Add reaction
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uses: peter-evans/create-or-update-comment@v4
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uses: peter-evans/create-or-update-comment@v5
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with:
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token: ${{ secrets.PR_MAINTAIN }}
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repository: ${{ github.event.client_payload.github.payload.repository.full_name }}

‎.github/workflows/pythonapp-gpu.yml‎

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options: --gpus all --env NVIDIA_DISABLE_REQUIRE=true # workaround for unsatisfied condition: cuda>=11.6
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runs-on: [self-hosted, linux, x64, common]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: apt install
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if: github.event.pull_request.merged != true
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run: |

‎.github/workflows/pythonapp-min.yml‎

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os: [windows-latest, macOS-latest, ubuntu-latest]
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timeout-minutes: 40
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- name: Prepare pip wheel
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python-version: ['3.9', '3.10', '3.11', '3.12']
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timeout-minutes: 40
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Set up Python ${{ matrix.python-version }}
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: ${{ matrix.python-version }}
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- name: Prepare pip wheel
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run: |
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which python
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python -m pip install --user --upgrade pip setuptools wheel
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python -m pip install --user more-itertools>=8.0
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- name: cache weekly timestamp
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id: pip-cache
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run: |
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pytorch-version: ['2.5.1', '2.6.0', '2.7.1', '2.8.0']
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timeout-minutes: 40
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- name: Prepare pip wheel
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run: |
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which python
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python -m pip install --user --upgrade pip setuptools wheel
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python -m pip install --user more-itertools>=8.0
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- name: cache weekly timestamp
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id: pip-cache
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run: |

‎.github/workflows/pythonapp.yml‎

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matrix:
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opt: ["codeformat", "pytype", "mypy"]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- name: cache weekly timestamp
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minimum-size: 8GB
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maximum-size: 16GB
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disk-root: "D:"
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- name: Prepare pip wheel
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QUICKTEST: True
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shell: bash
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steps:
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- uses: actions/checkout@v5
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with:
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fetch-depth: 0
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- name: cache weekly timestamp
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build-docs:
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v5
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- name: Set up Python 3.9
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: '3.9'
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- name: cache weekly timestamp

‎.github/workflows/release.yml‎

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matrix:
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python-version: ['3.9', '3.10', '3.11']
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- uses: actions/checkout@v5
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with:
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fetch-depth: 0
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- name: Set up Python ${{ matrix.python-version }}
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uses: actions/setup-python@v5
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uses: actions/setup-python@v6
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with:
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python-version: ${{ matrix.python-version }}
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- name: Install setuptools
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- if: matrix.python-version == '3.9' && startsWith(github.ref, 'refs/tags/')
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name: Upload artifacts
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uses: actions/upload-artifact@v5
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name: dist
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path: dist/
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needs: packaging
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v5
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# full history so that we can git describe
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with:
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fetch-depth: 0
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- name: Set up Python 3.9
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uses: actions/setup-python@v6
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python-version: '3.9'
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- shell: bash
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python setup.py build
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cat build/lib/monai/_version.py
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- name: Upload version
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uses: actions/upload-artifact@v5
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with:
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name: _version.py
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path: build/lib/monai/_version.py
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needs: versioning
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v5
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- name: Download version
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uses: actions/download-artifact@v6
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with:
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name: _version.py
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- name: Set tag

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