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Contour.apply_transform()   A

↳ Parent: torchio.transforms.preprocessing.label.contour

Complexity

Conditions 2

Size

Total Lines 8
Code Lines 8

Duplication

Lines 0
Ratio 0 %

Importance

Changes 0
Metric Value
cc 2
eloc 8
nop 2
dl 0
loc 8
rs 10
c 0
b 0
f 0
1 
import SimpleITK as sitk
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from .label_transform import LabelTransform

            


            
                                                                                                            
                            
            
                                    
            
            

                
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class Contour(LabelTransform):

            


            
                                                                                                            
                            
            
                                    
            
            

                
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    r"""Keep only the borders of each connected component in a binary image.

            


            
                                                                                                            
                            
            
                                    
            
            

                
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    Args:

            


            
                                                                                                            
                            
            
                                    
            
            

                
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        **kwargs: See :class:`~torchio.transforms.Transform` for additional

            


            
                                                                                                            
                            
            
                                    
            
            

                
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            keyword arguments.

            


            
                                                                                                            
                            
            
                                    
            
            

                
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    """

            


            
                                                                                                            
                            
            
                                    
            
            

                
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    def __init__(self, **kwargs):

            


            
                                                                                                            
                            
            
                                    
            
            

                
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        super().__init__(**kwargs)

            


            
                                                                                                            
                            
            
                                    
            
            

                
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        self.args_names = []

            


            
                                                                                                            
                                                                
            
                                    
            
            

                
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    def apply_transform(self, subject):

            


            
                                                        
            
                                    
            
            

                
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        for image in self.get_images(subject):

            


            
                                                        
            
                                    
            
            

                
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            assert image.data.ndim == 4 and image.data.shape[0] == 1

            


            
                                                        
            
                                    
            
            

                
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            sitk_image = image.as_sitk()

            


            
                                                        
            
                                    
            
            

                
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            contour = sitk.BinaryContour(sitk_image)

            


            
                                                        
            
                                    
            
            

                
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            tensor, _ = self.sitk_to_nib(contour)

            


            
                                                        
            
                                    
            
            

                
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            image.set_data(tensor)

            


            
                                                        
            
                                    
            
            

                
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        return subject

            


            
                                                        
            
                                    
            
            

                
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