fix(nnUNet): Correct background mask in BraTS preprocessor#1457
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Flink-ddd wants to merge 1 commit intoNVIDIA:masterfrom
Open
fix(nnUNet): Correct background mask in BraTS preprocessor#1457Flink-ddd wants to merge 1 commit intoNVIDIA:masterfrom
Flink-ddd wants to merge 1 commit intoNVIDIA:masterfrom
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Hi @nv-kkudrynski, I hope you are doing well. I'm just gently checking in on this pull request, which aims to fix the issue #1438 regarding an incorrect background mask generation in the BraTS preprocessor. Could you please take a look when you have a moment? Or perhaps suggest another reviewer who might be familiar with this part of the codebase? Thank you for your time and for maintaining this great project! |
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Hi, Maintainer.
This PR fixes the issue described in #1438.
Problem:
The preprocessing code for the BraTS nnU-Net example was using
np.where(image[i] <= 0)to create a background mask. This incorrectly masked out foreground voxels that had negative values after z-score normalization.Solution:
This fix changes the condition to
np.where(image[i] == 0), which correctly identifies only the true background voxels. This ensures the 5th channel mask is generated as intended.Fixes #1438