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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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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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