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CannySegmentationLevelSetImageFilter not support 3d medical image #782
I have successfully used both the FastMarhingImageFilter, and the CannySegementationLevelSetImageFitler in 3D. I do not believe this is a bug in either of the filters.
It sounds like you are trying to modify an example from 2D to 3D. The ITK discourse is the appropriate discussion format for help using ITK.