Quickfix#83
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Pull Request Overview
This PR “Quickfix” makes two key changes to improve segmentation handling and shape consistency.
- In TPTBox/core/poi.py, the cropping applied to the subregion mask is removed (now commented out) to rely solely on the crop computed from vert_msk.
- In TPTBox/core/nii_wrapper.py, an assertion is added to enforce that the filtered connected components array retains the expected shape, and the extraction of labels now explicitly uses get_array().
Reviewed Changes
Copilot reviewed 2 out of 2 changed files in this pull request and generated no comments.
| File | Description |
|---|---|
| TPTBox/core/poi.py | Removed subregion cropping by commenting out its compute_crop(maximum_size=…) call. |
| TPTBox/core/nii_wrapper.py | Added an assertion to verify shape consistency and updated label extraction logic. |
Comments suppressed due to low confidence (3)
TPTBox/core/poi.py:1069
- Commenting out the subregion mask cropping may affect the alignment between vert_msk and subreg_msk; please verify that the resulting crop is appropriate for both.
# crop = subreg_msk.compute_crop(maximum_size=crop)
TPTBox/core/nii_wrapper.py:1258
- The new assertion enforces shape consistency after filtering; please confirm that all segmentation use cases produce an array with the expected shape to avoid runtime errors.
assert arr.shape == self.shape, f"Shape mismatch: {arr.shape} != {self.shape}"
TPTBox/core/nii_wrapper.py:1264
- Using get_array() on the extracted label ensures proper array extraction for label preservation; please verify that this aligns with the intended behavior for all segmentation masks.
s = self.extract_label(old_labels,keep_label=True).get_array()
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