Add reader for hamamatsu .img format #718
Workflow file for this run
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| name: Tests | |
| on: [push, pull_request] | |
| jobs: | |
| run_test_site: | |
| name: ${{ matrix.os }}-py${{ matrix.PYTHON_VERSION }}${{ matrix.LABEL }} | |
| runs-on: ${{ matrix.os }}-latest | |
| timeout-minutes: 30 | |
| env: | |
| MPLBACKEND: agg | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu, windows, macos] | |
| PYTHON_VERSION: ['3.9', '3.10'] | |
| LABEL: [''] | |
| include: | |
| # test oldest supported version of main dependencies on python 3.8 | |
| - os: ubuntu | |
| PYTHON_VERSION: '3.8' | |
| # Set pillow and scikit-image version to be compatible with imageio and scipy | |
| DEPENDENCIES: matplotlib==3.1.3 numpy==1.20.0 scipy==1.5 imagecodecs==2020.1.31 tifffile==2020.2.16 dask[array]==2021.3.1 numba==0.52 imageio==2.16 pillow==8.3.2 scikit-image==0.18.0 | |
| LABEL: '-oldest' | |
| # test minimum requirement | |
| - os: ubuntu | |
| PYTHON_VERSION: '3.9' | |
| LABEL: '-minimum' | |
| - os: ubuntu | |
| PYTHON_VERSION: '3.9' | |
| LABEL: '-minimum-wo-hyperspy' | |
| - os: ubuntu | |
| PYTHON_VERSION: '3.9' | |
| LABEL: '-wo-hyperspy' | |
| - os: ubuntu | |
| PYTHON_VERSION: '3.8' | |
| - os: ubuntu | |
| PYTHON_VERSION: '3.11' | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| name: Install Python | |
| with: | |
| python-version: ${{ matrix.PYTHON_VERSION }} | |
| - name: Set Environment Variable | |
| shell: bash | |
| # Set PIP_SELECTOR environment variable according to matrix.LABEL | |
| run: | | |
| if [[ -n "${{ matrix.LABEL }}" && "${{ matrix.LABEL }}" == *"minimum"* ]]; then | |
| PIP_SELECTOR="[tests]" | |
| else | |
| PIP_SELECTOR="[all, tests]" | |
| fi | |
| echo "PIP_SELECTOR=${PIP_SELECTOR}" >> $GITHUB_ENV | |
| - name: Display version | |
| run: | | |
| python --version | |
| pip --version | |
| - name: Install oldest supported version | |
| if: contains(matrix.LABEL, 'oldest') | |
| run: | | |
| pip install ${{ matrix.DEPENDENCIES }} | |
| - name: Install (HyperSpy dev) | |
| if: "!contains(matrix.LABEL, 'wo-hyperspy')" | |
| # Need to install hyperspy dev until hyperspy 2.0 is released | |
| run: | | |
| pip install https://github.com/hyperspy/hyperspy/archive/refs/heads/RELEASE_next_major.zip | |
| - name: Install | |
| shell: bash | |
| run: | | |
| pip install --upgrade -e .'${{ env.PIP_SELECTOR }}' | |
| - name: Pip list | |
| run: | | |
| pip list | |
| - name: Run test suite | |
| run: | | |
| pytest --pyargs rsciio --reruns 3 -n 2 --cov=. --cov-report=xml | |
| - name: Upload coverage to Codecov | |
| if: ${{ always() }} | |
| uses: codecov/codecov-action@v3 |