Open valosekj opened 1 year ago
Very interesting bug! Thank you for reporting this, Jan. Maybe we could consider also reporting in SCT.
Note that this intensity issue results in the failure of the baselines/comparison_with_other_methods_sc.sh
script for
seed710
and seed123
train-test splits. --> we have no SC predictions for this subject for these two seeds.
I had a quick look at the data for this image (sub-5740_T2w.nii.gz
), and all the values which are outside the range [0, 10000] are concentrated in a small region of the image:
So maybe it would make sense to zero out this part of the image.
Edit: outside of this part of the image, the range of values is [0, 1839].
The
sci-colorado/sub-5740/anat/sub-5740_T2w.nii.gz
image has a weird intensity range:This results in a "gray nothing" when opening the image in FSLeyes:
When manually adjusting the min and max to 0-1000 interval, the image looks good:
The weird intensity range results in the failure of
sct_deepseg_sc
: