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Hello FreeSurfer Developers,

Recently I try to input following code to project the fiber endpoint to the surface. It can generate a label file but its position in surface is wrong ( it is displayed in the parietal lobe while the fiber is in the occipital lobe. Could you please help me to find the correct input?

dmri_projectEndPoints -i $tractpath -sl ./surf/lh.orig -sr ./surf/rh.orig
                       -ol left_endpt.mgh -or right_endpt.mgh
                       -ri ./T1_brain.nii.gz

mri_cor2label --i left_endpt.mgh --l left_endpt.label --surf 100206 lh white --id 1


Best regards,
Rosie



At 2024-01-04 16:16:38, "Rosie" <15073536708@163.com> wrote:

Hello FreeSurfer Developers,

I am attempting to project my fiber tract endpoint into the inflated surface. According to the code in trac-paths, it needs to create the endpoint volume file by dmri_pathstats. But when the number of non-truncated streamlines is less than total streamlines, the program is terminated (but it works when the number is the same).

my code: dmri_pathstats --intrk $tractpath --out right_stats --ends right_endpt --dtbase $fullpath$tensordata

Then, I noted that dmri_projectEndPoints can do it straightly, but the usage make me confused. 

my code: dmri_projectEndPoints -i $tractpath -sl ./surf/lh.orig -sr ./surf/rh.orig
                       -ol left_endpt.label -or right_endpt.label
                       -ri ./T1_brain.nii.gz

I wonder what should I do if I just want to project the fiber endpoint into the surface.

FreeSurfer version: freesurfer-linux-ubuntu18_x86_64-7.3.2
Platform: Ubuntu 18.04.5 on windows (WSL)

Best, 
Rosie Zhou