Comments (6)
qurit-frizi
commented on July 22, 2024
I will add a function to solve this issue.
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MattAWard
commented on July 22, 2024
Hi @qurit-frizi could I ask what your solution was for this? I'm having the same problem...
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pritamrungta
commented on July 22, 2024
Hi @qurit-frizi
I'm in a similar situation.
Any ideas to fix would be really helpful.
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MattAWard
commented on July 22, 2024
Hi @pritamrungta I ended up just rotating the arrays manually...
nii = nib.load(path\to\nii\file)
arr = np.array(nii.dataobj, dtype = bool)
rot_arr = np.rot90(arr)
rtstruct.add_roi(mask=rot_arr, name=roi_name)
iterate this over every mask and it should come out fine
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pritamrungta
commented on July 22, 2024
Hi @MattAWard
Thanks for the info.
I had thought of something in the similar lines,
but turns out it isn't a generalized solution (atleast didn't work for my images 😔)
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pritamrungta
commented on July 22, 2024
I had to eventually do arr.swapaxes(0, 1) instead of rotation on the data returned by nibabel.
Still open for feedback.
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