6166 drop py37 and torch 1.8 (#6227)

Fixes #6166

### Description
- reviewed the package metadata
- keep testing and code logic

### Types of changes
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [x] Non-breaking change (fix or new feature that would not break
existing functionality).
- [ ] Breaking change (fix or new feature that would cause existing
functionality to change).
- [ ] New tests added to cover the changes.
- [ ] Integration tests passed locally by running `./runtests.sh -f -u
--net --coverage`.
- [ ] Quick tests passed locally by running `./runtests.sh --quick
--unittests --disttests`.
- [ ] In-line docstrings updated.
- [x] Documentation updated, tested `make html` command in the `docs/`
folder.

---------

Signed-off-by: Wenqi Li <[email protected]>

Author: wyli

.github/workflows/cron.yml

@@ -13,16 +13,12 @@ jobs:
     strategy:
       matrix:
         environment:
-          - "PT182+CUDA102"
           - "PT191+CUDA113"
           - "PT110+CUDA113"
           - "PT112+CUDA113"
           - "PTLATEST+CUDA118"
         include:
           # https://docs.nvidia.com/deeplearning/frameworks/pytorch-release-notes
-          - environment: PT182+CUDA102
-            pytorch: "torch==1.8.2 torchvision==0.9.2 --extra-index-url https://download.pytorch.org/whl/lts/1.8/cu102"
-            base: "nvcr.io/nvidia/cuda:10.2-devel-ubuntu18.04"
           - environment: PT191+CUDA113
             pytorch: "torch==1.9.1 torchvision==0.10.1 --extra-index-url https://download.pytorch.org/whl/cu113"
             base: "nvcr.io/nvidia/pytorch:21.06-py3"  # CUDA 11.3
@@ -44,46 +40,8 @@ jobs:
     - name: apt install
       run: |
         # FIXME: workaround for https://github.com/Project-MONAI/MONAI/issues/4200
-        apt-key del 7fa2af80 && rm -rf /etc/apt/sources.list.d/nvidia-ml.list /etc/apt/sources.list.d/cuda.list
         apt-get update
         apt-get install -y wget
-        wget https://developer.download.nvidia.com/compute/cuda/repos/ubuntu1804/x86_64/cuda-keyring_1.0-1_all.deb
-        dpkg -i cuda-keyring_1.0-1_all.deb
-
-        if [ ${{ matrix.environment }} = "PT182+CUDA102" ]
-        then
-        PYVER=3.7 PYSFX=3 DISTUTILS=python3-distutils && \
-        apt-get update && apt-get install -y --no-install-recommends \
-          curl \
-          pkg-config \
-          python$PYVER \
-          python$PYVER-dev \
-          python$PYSFX-pip \
-          $DISTUTILS \
-          rsync \
-          swig \
-          unzip \
-          zip \
-          zlib1g-dev \
-          libboost-locale-dev \
-          libboost-program-options-dev \
-          libboost-system-dev \
-          libboost-thread-dev \
-          libboost-test-dev \
-          libgoogle-glog-dev \
-          libjsoncpp-dev \
-          cmake \
-          git && \
-        rm -rf /var/lib/apt/lists/* && \
-        export PYTHONIOENCODING=utf-8 LC_ALL=C.UTF-8 && \
-        rm -f /usr/bin/python && \
-        rm -f /usr/bin/python`echo $PYVER | cut -c1-1` && \
-        ln -s /usr/bin/python$PYVER /usr/bin/python && \
-        ln -s /usr/bin/python$PYVER /usr/bin/python`echo $PYVER | cut -c1-1` &&
-        curl -O https://bootstrap.pypa.io/get-pip.py && \
-        python get-pip.py && \
-        rm get-pip.py;
-        fi
     - name: Install the dependencies
       run: |
         which python
@@ -164,7 +122,7 @@ jobs:
     if: github.repository == 'Project-MONAI/MONAI'
     strategy:
       matrix:
-        container: ["pytorch:21.02", "pytorch:21.10", "pytorch:22.12"]  # 21.02, 21.10 for backward comp.
+        container: ["pytorch:22.09", "pytorch:22.11", "pytorch:22.12"]
     container:
       image: nvcr.io/nvidia/${{ matrix.container }}-py3  # testing with the latest pytorch base image
       options: "--gpus all"

.github/workflows/pythonapp-gpu.yml

@@ -21,17 +21,12 @@ jobs:
     strategy:
       matrix:
         environment:
-          - "PT18+CUDA102"
           - "PT19+CUDA114DOCKER"
           - "PT110+CUDA111"
           - "PT112+CUDA118DOCKER"
           - "PT113+CUDA116"
         include:
           # https://docs.nvidia.com/deeplearning/frameworks/pytorch-release-notes
-          - environment: PT18+CUDA102
-            # pytorch 1.8.2 LTS
-            pytorch: "torch==1.8.2 torchvision==0.9.2 --extra-index-url https://download.pytorch.org/whl/lts/1.8/cu102"
-            base: "nvcr.io/nvidia/cuda:10.2-devel-ubuntu18.04"
           - environment: PT19+CUDA114DOCKER
             # 21.10: 1.10.0a0+0aef44c
             pytorch: "-h"  # we explicitly set pytorch to -h to avoid pip install error
@@ -55,18 +50,13 @@ jobs:
     - name: apt install
       if: github.event.pull_request.merged != true
       run: |
-        # FIXME: workaround for https://github.com/Project-MONAI/MONAI/issues/4200
-        apt-key del 7fa2af80 && rm -rf /etc/apt/sources.list.d/nvidia-ml.list /etc/apt/sources.list.d/cuda.list
         apt-get update
         apt-get install -y wget
-        wget https://developer.download.nvidia.com/compute/cuda/repos/ubuntu1804/x86_64/cuda-keyring_1.0-1_all.deb
-        dpkg -i cuda-keyring_1.0-1_all.deb
 
-        if [ ${{ matrix.environment }} = "PT18+CUDA102" ] || \
-          [ ${{ matrix.environment }} = "PT110+CUDA111" ] || \
+        if [ ${{ matrix.environment }} = "PT110+CUDA111" ] || \
           [ ${{ matrix.environment }} = "PT113+CUDA116" ]
         then
-        PYVER=3.7 PYSFX=3 DISTUTILS=python3-distutils && \
+        PYVER=3.8 PYSFX=3 DISTUTILS=python3-distutils && \
         apt-get update && apt-get install -y --no-install-recommends \
           curl \
           pkg-config \
@@ -134,7 +124,7 @@ jobs:
         # build for the current self-hosted CI Tesla V100
         BUILD_MONAI=1 TORCH_CUDA_ARCH_LIST="7.0" ./runtests.sh --build --disttests
         ./runtests.sh --quick --unittests
-        if [ ${{ matrix.environment }} = "PT18+CUDA102" ]; then
+        if [ ${{ matrix.environment }} = "PT113+CUDA116" ]; then
           # test the clang-format tool downloading once
           coverage run -m tests.clang_format_utils
         fi

.github/workflows/pythonapp-min.yml

@@ -75,7 +75,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.7', '3.8', '3.9', '3.10', '3.11']
+        python-version: ['3.8', '3.9', '3.10', '3.11']
     timeout-minutes: 40
     steps:
     - uses: actions/checkout@v3
@@ -120,7 +120,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        pytorch-version: ['1.8.2', '1.9.1', '1.10.2', '1.11.0', '1.12.1', 'latest']
+        pytorch-version: ['1.9.1', '1.10.2', '1.11.0', '1.12.1', '1.13', 'latest']
     timeout-minutes: 40
     steps:
     - uses: actions/checkout@v3
@@ -149,16 +149,8 @@ jobs:
         # min. requirements
         if [ ${{ matrix.pytorch-version }} == "latest" ]; then
           python -m pip install torch
-        elif [ ${{ matrix.pytorch-version }} == "1.8.2" ]; then
-          python -m pip install torch==1.8.2 --extra-index-url https://download.pytorch.org/whl/lts/1.8/cpu
-        elif [ ${{ matrix.pytorch-version }} == "1.9.1" ]; then
-          python -m pip install torch==1.9.1
-        elif [ ${{ matrix.pytorch-version }} == "1.10.2" ]; then
-          python -m pip install torch==1.10.2
-        elif [ ${{ matrix.pytorch-version }} == "1.11.0" ]; then
-          python -m pip install torch==1.11.0
-        elif [ ${{ matrix.pytorch-version }} == "1.12.1" ]; then
-          python -m pip install torch==1.12.1
+        else
+          python -m pip install torch==${{ matrix.pytorch-version }}
         fi
         python -m pip install -r requirements-min.txt
         python -m pip list

.github/workflows/pythonapp.yml

@@ -149,7 +149,7 @@ jobs:
         # install the latest pytorch for testing
         # however, "pip install monai*.tar.gz" will build cpp/cuda with an isolated
         # fresh torch installation according to pyproject.toml
-        python -m pip install torch>=1.8 torchvision
+        python -m pip install torch>=1.9 torchvision
     - name: Check packages
       run: |
         pip uninstall monai

.github/workflows/release.yml

@@ -13,7 +13,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ['3.7', '3.8', '3.9', '3.10', '3.11']
+        python-version: ['3.9', '3.10', '3.11']
     steps:
     - uses: actions/checkout@v3
       with:
@@ -82,7 +82,7 @@ jobs:
       uses: pypa/gh-action-pypi-publish@release/v1
       with:
         password: ${{ secrets.TEST_PYPI }}
-        repository_url: https://test.pypi.org/legacy/
+        repository-url: https://test.pypi.org/legacy/
 
   versioning:
     # compute versioning file from python setup.py

.github/workflows/setupapp.yml

@@ -76,7 +76,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ['3.7', '3.8', '3.9', '3.10']
+        python-version: ['3.9', '3.10']
     steps:
     - uses: actions/checkout@v3
       with:

.readthedocs.yml

@@ -18,7 +18,7 @@ sphinx:
 
 # Optionally set the version of Python and requirements required to build your docs
 python:
-  version: 3.7
+  version: 3.8
   install:
     - requirements: docs/requirements.txt
 #  system_packages: true

CONTRIBUTING.md

@@ -117,7 +117,7 @@ or (for new features that would not break existing functionality):
 ```
 
 It is recommended that the new test `test_[module_name].py` is constructed by using only
-python 3.7+ build-in functions, `torch`, `numpy`, `coverage` (for reporting code coverages) and `parameterized` (for organising test cases) packages.
+python 3.8+ build-in functions, `torch`, `numpy`, `coverage` (for reporting code coverages) and `parameterized` (for organising test cases) packages.
 If it requires any other external packages, please make sure:
 - the packages are listed in [`requirements-dev.txt`](requirements-dev.txt)
 - the new test `test_[module_name].py` is added to the `exclude_cases` in [`./tests/min_tests.py`](./tests/min_tests.py) so that

docs/images/python.svg

@@ -1,5 +1,5 @@
 -f https://download.pytorch.org/whl/cpu/torch-1.12.1%2Bcpu-cp37-cp37m-linux_x86_64.whl
-torch>=1.8
+torch>=1.9
 pytorch-ignite==0.4.11
 numpy>=1.20
 itk>=5.2

docs/requirements.txt

@@ -19,7 +19,7 @@
 
 ---
 
-MONAI's core functionality is written in Python 3 (>= 3.7) and only requires [Numpy](https://numpy.org/) and [Pytorch](https://pytorch.org/).
+MONAI's core functionality is written in Python 3 (>= 3.8) and only requires [Numpy](https://numpy.org/) and [Pytorch](https://pytorch.org/).
 
 The package is currently distributed via Github as the primary source code repository,
 and the Python package index (PyPI). The pre-built Docker images are made available on DockerHub.

docs/source/installation.md

@@ -6,7 +6,7 @@ channels:
   - conda-forge
 dependencies:
   - numpy>=1.20
-  - pytorch>=1.8
+  - pytorch>=1.9
   - torchvision
   - pytorch-cuda=11.6
   - pip

environment-dev.yml

@@ -17,7 +17,7 @@
 from ._version import get_versions
 
 PY_REQUIRED_MAJOR = 3
-PY_REQUIRED_MINOR = 7
+PY_REQUIRED_MINOR = 8
 
 version_dict = get_versions()
 __version__: str = version_dict.get("version", "0+unknown")

monai/__init__.py

@@ -2,13 +2,13 @@
 requires = [
   "wheel",
   "setuptools",
-  "torch>=1.8",
+  "torch>=1.9",
   "ninja",
 ]
 
 [tool.black]
 line-length = 120
-target-version = ['py37', 'py38', 'py39', 'py310']
+target-version = ['py38', 'py39', 'py310']
 include = '\.pyi?$'
 exclude = '''
 (

pyproject.toml

@@ -1,2 +1,2 @@
-torch>=1.8
+torch>=1.9
 numpy>=1.20

requirements.txt

@@ -21,7 +21,6 @@ classifiers =
     Intended Audience :: Healthcare Industry
     Programming Language :: C++
     Programming Language :: Python :: 3
-    Programming Language :: Python :: 3.7
     Programming Language :: Python :: 3.8
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
@@ -34,15 +33,15 @@ classifiers =
     Typing :: Typed
 
 [options]
-python_requires = >= 3.7
+python_requires = >= 3.8
 # for compiling and develop setup only
 # no need to specify the versions so that we could
 # compile for multiple targeted versions.
 setup_requires =
     torch
     ninja
 install_requires =
-    torch>=1.8
+    torch>=1.9
     numpy>=1.20
 
 [options.extras_require]

setup.cfg

@@ -221,7 +221,7 @@
             ],
         },
     },
-    {  # test answers for PyTorch 1.8
+    {  # test answers for cuda 10.x
         "integration_classification_2d": {
             "losses": [0.777176220515731, 0.16019743723664315, 0.07480076164197011, 0.045643698364780966],
             "best_metric": 0.9999418774120775,