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Centerline extraction should not be done in `template_preprocessing.py` #32

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jcohenadad opened this issue Jun 29, 2023 · 0 comments

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jcohenadad commented Jun 29, 2023

template/template_preprocessing.py

Lines 170 to 173 in 130f8a4

    
           else: 
        
               print(subject_name + ' SC segmentation does not exist. Extracting centerline from ' + fname_image) 
        
               im_seg = Image(fname_image).change_orientation('RPI') 
        
               param_centerline = ParamCenterline(algo_fitting = 'optic', contrast = contrast, smooth = smooth, degree = 5, minmax = minmax)

To implement in https://github.com/neuropoly/template/edit/nb/updated_all

NadiaBlostein pushed a commit that referenced this issue


          Solving issues #34 and #32

5b0aa6b

jcohenadad mentioned this issue

Make the code more generalizable to non-human template #53

Merged

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