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[BraTSPipeline] Move brain-masked image write to Skull Stripping instead of Brain Tumor step #1493

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AlexanderGetka-cbica
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Fixes #1492

Simply moves the step of writing out the brain-masked images up slightly, to the end of the Skull Stripping step instead of the beginning of the Brain Tumor step.

(ignore my branch name, i used the wrong branch for this but it doesn't matter)

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@sarthakpati sarthakpati left a comment

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LGTM!

@AlexanderGetka-cbica AlexanderGetka-cbica merged commit 33cf03c into CBICA:master May 6, 2022
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Successfully merging this pull request may close these issues.

Co-registered images with brain mask applied not generated unless --brainTumor is set to 1
3 participants