acr_uniformity update #523
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
| # Runs on pull request or release - checks CLI tools are working without raising exception | |
| name: CLI tests | |
| on: | |
| pull_request: | |
| release: | |
| jobs: | |
| test_cli: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ ubuntu-latest ] | |
| python-version: [ '3.9', '3.11' ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install flake8 pytest pytest-cov | |
| if [ -f requirements.txt ]; then pip install -r requirements.txt; fi | |
| - name: Install hazen | |
| run: | | |
| pip install . | |
| # "if: always option" runs step even if previous fails - useful to ensure all CLI functions tested | |
| - name: test_snr | |
| if: always() | |
| run: | | |
| hazen snr tests/data/snr/Siemens --report | |
| hazen snr tests/data/snr/Siemens --measured_slice_width 5.0012 --report | |
| - name: test_acr_snr | |
| if: always() | |
| run: | | |
| hazen acr_snr tests/data/acr/Siemens --report | |
| hazen acr_snr tests/data/acr/Siemens --subtract tests/data/acr/Siemens2 --report | |
| - name: test acr_uniformity | |
| if: always() | |
| run: | | |
| hazen acr_uniformity tests/data/acr/Siemens --report | |
| - name: test acr_ghosting | |
| if: always() | |
| run: | | |
| hazen acr_ghosting tests/data/acr/Siemens --report | |
| - name: test acr_slice_position | |
| if: always() | |
| run: | | |
| hazen acr_slice_position tests/data/acr/Siemens --report | |
| - name: test acr_slice_thickness | |
| if: always() | |
| run: | | |
| hazen acr_slice_thickness tests/data/acr/Siemens --report | |
| - name: test acr_geometric_accuracy | |
| if: always() | |
| run: | | |
| hazen acr_geometric_accuracy tests/data/acr/Siemens --report | |
| - name: test acr_spatial_resolution | |
| if: always() | |
| run: | | |
| hazen acr_spatial_resolution tests/data/acr/SiemensMTF --report | |
| - name: test slice_position | |
| if: always() | |
| run: | | |
| hazen slice_position tests/data/slicepos/SLICEPOSITION --report | |
| - name: test slice_width | |
| if: always() | |
| run: | | |
| hazen slice_width tests/data/slicewidth/512_matrix --report | |
| hazen slice_width tests/data/slicewidth/SLICEWIDTH --report | |
| - name: test spatial_resolution | |
| if: always() | |
| run: | | |
| hazen spatial_resolution tests/data/resolution/RESOLUTION/ --report | |
| - name: test uniformity | |
| if: always() | |
| run: | | |
| hazen uniformity tests/data/uniformity --report | |
| - name: test ghosting | |
| if: always() | |
| run: | | |
| hazen ghosting tests/data/ghosting/GHOSTING --report | |
| hazen ghosting tests/data/ghosting/PE_COL_PHANTOM_BOTTOM_RIGHT --report | |
| - name: test snr_map | |
| if: always() | |
| run: | | |
| hazen snr_map tests/data/snr/Siemens --report | |
| - name: test relaxometry | |
| if: always() | |
| run: | | |
| hazen relaxometry tests/data/relaxometry/T1/site1_20200218/plate5 --calc T1 --plate_number=5 --report | |
| hazen relaxometry tests/data/relaxometry/T2/site3_ge/plate4/ --calc T2 --plate_number=4 --report | |