The in-line help in version 6.0 of FreeSurfer is incorrect unfortunately. Please try the following for example:

mris_pmake --subject testSubject \ --hemi lh \ --surface pial \ --curv sulc \ --mpmOverlay euclidean \ --mpmProg pathFind \ --mpmArgs vertexStart:121981,vertexEnd:132633

to determine the distance on subject 'testSubject' for the lh.pial surface. Of course, adjust as necessary.

best

On Wed, 2019-08-21 at 14:35 -0400, Lee, Jeungchan wrote:

Hi,

I’m trying to calculate Dijkstra distance between startVertex and endVertex on the inflated surface (fsaverage, lh.inflated) using mris_pmake.

I see several options: --surface0, --surface1, --curv0, --curv1

I think I can use ‘--surface0 inflated’, but not sure about other options e.g., --surface1, --curv0, and --curv1.

I read the instruction (curv0 for curvature, curv1 for height parameter…) but was not able to understand what those mean exactly and what to use.

Would you explain what the meaning is and what to use?

Here is the command line that I have:

Mris_pmake --subject fsaverage --hemi lh --surface0 inflated --curv0 sulc --curv1 sulc --mpmOverlay euclidean --mpmProg pathFind --mpmArgs `more ./input_D.txt` (where input_D.txt says startVertex:8762,endVertex:1, for example)

Thanks in advance,

jeungchan

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