BUG: Brain label error still persists

[josefyu]

Need to manually start again:

Calculated SUV image for SUV extraction!

• Brain found in field-of-view of PET/CT data...
• Cropping brain from PET image using the aligned CT brain mask Traceback (most recent call last): File "/usr/local/bin/moose", line 214, in cropped_pet_brain = iop.crop_image_using_mask(image_to_crop=pet_file[0], File "/home/mz/Documents/Softwares/MOOSE-V.1.0/src/imageOp.py", line 228, in crop_image_using_mask bbox = np.asarray(label_shape_filter.GetBoundingBox(1)) File "/usr/local/lib/python3.8/dist-packages/SimpleITK/SimpleITK.py", line 36183, in GetBoundingBox return _SimpleITK.LabelShapeStatisticsImageFilter_GetBoundingBox(self, label) RuntimeError: Exception thrown in SimpleITK LabelShapeStatisticsImageFilter_GetBoundingBox: /tmp/SimpleITK-build/ITK-prefix/include/ITK-5.2/itkLabelMap.hxx:151: ITK ERROR: LabelMap(0x9547bd0): No label object with label 1.

[chris-clem]

Hello,

I am experiencing the same problem. Is there a way to solve it?

Thanks!

[LalithShiyam]

Hi @chris-clem, does your PET/CT image have a brain in the field of view? Sometimes the 2D-CNN that tries to figure out if the PET image has a brain or not tends to fail. I think the error you see might be caused due to this. If you know that your PET/CT image has no brain in the FOV, simply remove the PET DICOM folder and run with the CT folder. Ideally, it should just work.

[chris-clem]

Sorry for the late response. That was indeed the problem, thank you!