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Need to transpose array obtained from itk instead of reversing of itk.size() in ITKReader

See original GitHub issue

Description

In ITKReader, itk.size(img) should not be reversed since it outputs correct size of an image. Instead, itk.array_view_from_image(img, keep_axes=False) provides the transposed array and such numpy array must be transposed because of the differences of storing the data in numpy and itk.

This PR is wrong: https://github.com/Project-MONAI/MONAI/pull/1045. See also https://github.com/InsightSoftwareConsortium/ITK/issues/2006

Expected behavior

Need to remove the reverse for itk.size.
Transpose array obtained from itk.array_view_from_image.

Issue Analytics

State:
Created 3 years ago
Comments:20 (12 by maintainers)

Top GitHub Comments

3reactions

thewtexcommented, Dec 23, 2020

To follow-up, I made some progress on this, but I will come back to it after I return in the new year. Happy pre-2021!

1reaction

dzenanzcommented, May 25, 2021

I plan to work on this issue soon - in case somebody is already working on it or planned to.

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