sw2vtkImage doesn't include spacing or origin (fixed in pymodule_conv)

[cchriste]

vtkImg.spacing = swImg.spacing() needs to be added to this function
Might also be able to maintain origin and other parts of the Image.

[cchriste]

related to #825

[cchriste]

It might help to show the function here. This is from the "getting-started-with-exploring-segmentations" notebook, and the function will soon be included directly in the shapeworks module.

# a helper function that converts shapeworks Image object to vtk image
def sw2vtkImage(swImg, verbose = False):
            
    # get the numpy array of the shapeworks image
    array  = swImg.toArray()
    
    # the numpy array needs to be permuted to match the shapeworks image dimensions
    array = np.transpose(array,(2,1,0))
    
    # converting a numpy array to a vtk image using pyvista's wrap function
    vtkImg = pv.wrap(array)
    
    if verbose:
        print('shapeworks image header information: ')
        print(swImg)

        print('\nvtk image header information: ')
        print(vtkImg) 
    
    return vtkImg

[cchriste]

Add this to the function and it works (it'll be added to helper function in pymodule branch):

    # set spacing
    spacing = swImg.spacing()
    vtkImg.spacing = [spacing[0], spacing[1], spacing[2]]
    
    # set origin
    origin = img.origin()
    vtkImg.origin = [origin[0], origin[1], origin[2]]

[archanasri]

Done in pymodule_conv

[sheryjoe]

@archanasri can we close this?

[sheryjoe]

@archanasri is this still an issue?

[archanasri]

Done.