Bump itk-elastix from 0.19.2 to 0.21.0 in /envs #1192
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| # GitHub Actions Continuous Integration workflow for MagellanMapper | |
| # Based on initial template by GitHub Actions | |
| name: CI | |
| # Controls when the action will run. | |
| on: | |
| # Triggers the workflow on push or pull request events but only for the master branch | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| jobs: | |
| # This workflow contains a single job called "build" | |
| build: | |
| # The type of runner that the job will run on | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-13, macos-latest, windows-latest] | |
| python-version: ["3.6", "3.7", "3.8", "3.9", "3.10", "3.11"] | |
| dependencies: | |
| - pinned | |
| - fresh | |
| exclude: | |
| - os: ubuntu-latest | |
| python-version: 3.6 | |
| - os: macos-13 | |
| python-version: 3.10 | |
| - os: macos-13 | |
| python-version: 3.11 | |
| - os: macos-latest | |
| python-version: 3.6 | |
| - os: macos-latest | |
| python-version: 3.7 | |
| - os: macos-latest | |
| python-version: 3.8 | |
| - os: macos-latest | |
| python-version: 3.9 | |
| include: | |
| - os: ubuntu-20.04 | |
| python-version: 3.6 | |
| dependencies: pinned | |
| - os: ubuntu-20.04 | |
| python-version: 3.6 | |
| dependencies: fresh | |
| env: | |
| # set requirements path based on Python version | |
| REQS: ${{ matrix.python-version == '3.6' && 'envs/requirements_py36' || matrix.python-version == '3.7' && 'envs/requirements_py37' || matrix.python-version == '3.8' && 'envs/requirements_py38' || 'envs/requirements.txt'}} | |
| steps: | |
| - name: Check out repo | |
| uses: actions/checkout@v3 | |
| - name: Install VTK dependencies | |
| if: ${{ runner.os == 'Linux' }} | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install libsm6 libgl1-mesa-glx | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Cache pip | |
| uses: actions/cache@v3 | |
| if: ${{ matrix.dependencies == 'pinned' }} | |
| with: | |
| # python environment path from setup-python | |
| path: ${{ env.pythonLocation }} | |
| # check for cache from the corresponding requirements file | |
| key: ${{ env.pythonLocation }}-pip-${{ hashFiles(env.REQS) }} | |
| - name: Set up dependencies | |
| run: | | |
| python -m pip install --upgrade pip setuptools wheel | |
| pip install flake8 | |
| - name: Install pinned dependencies | |
| if: ${{ matrix.dependencies == 'pinned' }} | |
| env: | |
| QT_QPA_PLATFORM: offscreen | |
| run: | | |
| pip install -r ${{ env.REQS }} | |
| - name: Install fresh dependencies | |
| if: ${{ matrix.dependencies == 'fresh' }} | |
| env: | |
| QT_QPA_PLATFORM: offscreen | |
| run: | | |
| pip install . | |
| - name: Lint with flake8 | |
| run: | | |
| # stop the build if there are Python syntax errors or undefined names | |
| flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics --exclude stitch | |
| # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | |
| flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics --exclude stitch | |
| - name: Test with pytest | |
| run: | | |
| python -u -m magmap.tests.test_chunking | |
| python -u -m magmap.tests.test_classifier | |
| python -u -m magmap.tests.test_cv_nd | |
| python -u -m magmap.tests.test_detector | |
| python -u -m magmap.tests.test_libmag | |
| python -u -m magmap.tests.test_np_io | |
| # TODO: add UI testing | |
| #python -u -m magmap.tests.test_visualizer | |
| # TODO: add image artifacts | |
| #python -u -m magmap.tests.test_img_equality | |
| #python -u -m magmap.tests.unit_testing |