Re: [Freesurfer] Tracula Config file.

You only need to specify path names if you don't want to reconstruct all 42 paths. But from the list, it looks like you want all 42 paths, so you don't need to specify anything. Skip all of those lines and you'll get the default behavior. From:

Re: [Freesurfer] Tracula Config file.

External Email - Use Caution Hi Alan, In your pathlist, the 1st path is acomm. You have "ac" in your file. Change ac to acomm and you should be good to go. Best, King-Wai On Fri, Aug 5, 2022 at 4:23 PM Alan Francis wrote: > External Email - Use Caution > > Hi

[Freesurfer] PET-segmentattion

External Email - Use Caution I want to segment registered PET to T1 MRI to 45 subcortical regions as the regions in aseg.stats of MRI. I used mri_segstats --seg MRI-floder/mri/aparc+aseg.mgz --reg Pet2T1.register.dof12.lta --sum petsuv.segstats.dat --i PET-SPM.mgh

Re: [Freesurfer] Tracula Config file.

External Email - Use Caution Hi King-Wai - First of all, thank you so much for taking the time to investigate my RC file. I made the changes that you suggested, but the error keeps coming up. I have attached the file. Thanks again, Alan On Fri, Aug 5, 2022 at 2:03 PM King-Wai

Re: [Freesurfer] Tracula Config file.

You don't need all that stuff. You should remove everything below the bvalfile line and use the default parameters. From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Alan Francis Sent: Friday, August 5, 2022 2:34 PM To: Freesurfer support list

Re: [Freesurfer] Tracula Config file.

External Email - Use Caution Hi Alan, They still don't match. See attached excel file. Best, King-Wai On Fri, Aug 5, 2022 at 2:35 PM Alan Francis wrote: > External Email - Use Caution > > Hello King-Wai - > > I made the change to the ncpts. But still an error message

Re: [Freesurfer] Tracula Config file.

External Email - Use Caution Hello King-Wai - I made the change to the ncpts. But still an error message persists. ERROR: length of pathway list (ac cc.bodyc cc.bodyp cc.bodypf cc.bodypm cc.bodyt cc.genu cc.rostrum cc.splenium mcp lh.af rh.af lh.ar rh.ar lh.atr rh.atr lh.cbd

Re: [Freesurfer] Tracula Config file.

External Email - Use Caution Thank you King-Wai. On Fri, Aug 5, 2022 at 11:29 AM King-Wai Chu wrote: > External Email - Use Caution > > Hi Alan, > > Your pathlist and "Number of path control points"(ncpts) don't match. > You have more than 3 paths in the pathlist and

Re: [Freesurfer] Tracula Config file.

External Email - Use Caution Hi Alan, Your pathlist and "Number of path control points"(ncpts) don't match. You have more than 3 paths in the pathlist and only 3 numbers in ncpts. Best, King-Wai On Fri, Aug 5, 2022 at 10:53 AM Alan Francis wrote: > External Email

Re: [Freesurfer] Tracula Config file.

External Email - Use Caution Good morning Anastasia - I made the changes you suggested and removed "extraneous" commands. But the error message still persists. Could you please shed some light on this? Attached - latest RC file. The error message is : unmatched ' " ' Thank you