jackyko1991/vnet-tensorflow

Spatial dimensions order

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riccardosamperna commented

Hi,
thank you for sharing your code. I have a question about something you are doing here:

vnet-tensorflow/NiftiDataset3D.py

Line 131 in 4c60947

# to unify matrix dimension order between SimpleITK([x,y,z]) and numpy([z,y,x])

What is the reason to call np.transpose() on the axis? I am asking this question because I have seen it in different places but according to Tensorflow conv3d documentation the format of the spatial dimensions should be (z, y, x) already returned from sitk.GetArrayFromImage().

Am I missing something?