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Dear experts

I was able to get SAMSEG --lesion to work on WSL (did not crash once I used float images instead of 16bit usign), but all that's being written out are listed below:


Folder: D:\0007_Subjects-FS\T1T2-lesion-float\
Files:
cost.txt
gaussians.rescaled.txt
mode01_bias_corrected.mgz
mode01_bias_field.mgz
mode01_scaling.txt
mode02_bias_corrected.mgz
mode02_bias_field.mgz
mode02_scaling.txt
samseg.stats
samseg.talairach.lta
sbtiv.stats
seg.mgz
template.lta
template_coregistered.mgz
template_transforms.mat

Since this is the first time got --lesion to run, I have no idea what the output "should" be.  Shouldn't some sort "lesion mask" be written out?

Thanks in advance for any insights/comments you might have

-Randy


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SNIPPET FROM THE END OF THE "SUCCESSFUL" SAMSEG --lesion run
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run_samseg -o $SUBJECTS_DIR/T1T2-lesion-float -i o_ADNI_002_S_4654__MRI-m072_float.nii rT1_o_ADNI_002_S_4654__MRI-m072_FLAIR_float.nii --pallidum-separate --lesion --lesion-mask-pattern 0 1 --threshold 0.7

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Sample 44 times
Sample 45 times
Sample 46 times
Sample 47 times
Sample 48 times
Sample 49 times
Sample 50 times
thresholding posterior of  Lesions with threshold: 0.7
Constructing image-to-world transform from header information (o_ADNI_002_S_4654__MRI-m072_float.nii)
Read image: o_ADNI_002_S_4654__MRI-m072_float.nii
using default intracranial structures to compute sbtiv measure
run_samseg complete: 0:34:36.159030
daedalus@DESKTOP-TILLA3B:/usr/local/freesurfer/7-dev/subjects$

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YAY!
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