Upgrade OHIF v3 plugin to support OHIF 3.9+ version #3679
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # Copyright (c) MONAI Consortium | |
| # Licensed under the Apache License, Version 2.0 (the "License"); | |
| # you may not use this file except in compliance with the License. | |
| # You may obtain a copy of the License at | |
| # http://www.apache.org/licenses/LICENSE-2.0 | |
| # Unless required by applicable law or agreed to in writing, software | |
| # distributed under the License is distributed on an "AS IS" BASIS, | |
| # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. | |
| # See the License for the specific language governing permissions and | |
| # limitations under the License. | |
| # This workflow will install Python dependencies, run tests and lint with a single version of Python | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| name: build | |
| on: | |
| push: | |
| branches: [ main ] | |
| pull_request: | |
| branches: [ main ] | |
| workflow_dispatch: | |
| concurrency: | |
| # automatically cancel the previously triggered workflows when there's a newer version | |
| group: build-${{ github.event.pull_request.number || github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| deps_check: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [windows-latest, ubuntu-latest] | |
| python-version: ["3.9", "3.10", "3.11", "3.12"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - if: runner.os == 'Linux' | |
| name: Cleanup (Linux only) | |
| run: | | |
| rm -rf /opt/hostedtoolcache | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip wheel | |
| pip install -r requirements.txt | |
| build: | |
| runs-on: ubuntu-latest | |
| env: | |
| MONAI_ZOO_AUTH_TOKEN: ${{ github.token }} | |
| strategy: | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11", "3.12"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| rm -rf /opt/hostedtoolcache | |
| sudo apt-get install openslide-tools -y | |
| python -m pip install --upgrade pip wheel | |
| pip install -r requirements-dev.txt | |
| - name: Clean | |
| run: | | |
| $(pwd)/runtests.sh --clean | |
| - name: PyType | |
| run: | | |
| echo $(pwd)/runtests.sh --pytype | |
| - name: Unit Tests | |
| run: | | |
| $(pwd)/runtests.sh --unittests | |
| - name: Upload coverage | |
| uses: codecov/codecov-action@v5 | |
| with: | |
| fail_ci_if_error: false | |
| file: ./coverage.xml | |
| packaging: | |
| runs-on: ubuntu-latest | |
| env: | |
| MONAI_ZOO_AUTH_TOKEN: ${{ github.token }} | |
| strategy: | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11", "3.12"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - uses: actions/setup-node@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: cache weekly timestamp | |
| id: pip-cache | |
| run: | | |
| echo "datew=$(date '+%Y-%V')" >> $GITHUB_OUTPUT | |
| - name: cache for pip | |
| uses: actions/cache@v4 | |
| id: cache | |
| with: | |
| path: | | |
| ~/.cache/pip | |
| ~/.cache/torch | |
| key: ${{ runner.os }}-pip-${{ steps.pip-cache.outputs.datew }} | |
| - name: Install dependencies | |
| run: | | |
| rm -rf /opt/hostedtoolcache | |
| sudo apt-get install openslide-tools -y | |
| python -m pip install --user --upgrade pip setuptools wheel | |
| python -m pip install torch torchvision | |
| - name: Build Package | |
| run: | | |
| ./runtests.sh --clean | |
| BUILD_OHIF=true python setup.py sdist bdist_wheel | |
| ls -l dist | |
| - name: Verify Package | |
| run: | | |
| tmp_dir=$(mktemp -d) | |
| cp dist/monailabel* "$tmp_dir" | |
| rm -r build monailabel*.egg-info | |
| # install from wheel | |
| python -m pip install "$tmp_dir"/monailabel*.whl | |
| python -c 'import monailabel; monailabel.print_config()' 2>&1 | grep -iv "unknown" | |
| python -c 'import monailabel; print(monailabel.__file__)' | |
| # install test utilities | |
| python -m pip install pytest | |
| # start the monailabel server in the background and run the integration tests | |
| ./runtests.sh --net | |
| # cleanup | |
| python -m pip uninstall -y monailabel | |
| rm -r "$tmp_dir" | |
| env: | |
| shell: bash | |
| build-docs: | |
| runs-on: ubuntu-latest | |
| env: | |
| MONAI_ZOO_AUTH_TOKEN: ${{ github.token }} | |
| strategy: | |
| matrix: | |
| python-version: ["3.10"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: cache weekly timestamp | |
| id: pip-cache | |
| run: | | |
| echo "datew=$(date '+%Y-%V')" >> $GITHUB_OUTPUT | |
| - name: cache for pip | |
| uses: actions/cache@v4 | |
| id: cache | |
| with: | |
| path: | | |
| ~/.cache/pip | |
| ~/.cache/torch | |
| key: ${{ runner.os }}-pip-${{ steps.pip-cache.outputs.datew }} | |
| - name: Install dependencies | |
| run: | | |
| rm -rf /opt/hostedtoolcache | |
| sudo apt-get install openslide-tools -y | |
| python -m pip install --upgrade pip wheel | |
| python -m pip install -r docs/requirements.txt | |
| - name: Make html | |
| run: | | |
| export PYTHONPATH=$(pwd) | |
| cd docs/ | |
| make clean | |
| make html 2>&1 | tee tmp_log | |
| if [[ $(grep -c "WARNING:" tmp_log) != 0 ]]; then echo "found warnings"; grep "WARNING:" tmp_log; exit 1; fi | |
| shell: bash |