Hello Marie,

I am trying to conduct a local gyrification index analysis, however I am getting this error ERROR: make_roi_paths did not complete successfully!

Which is the same as the one posted earlier by someone else: https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2013-July/032203.html

I added the "patch":

function [verticeslist]=SearchProjectionOnPial(mesh_total,mesh_outer,perim, step)

% step is typically set between 5 and 10. Default is 7, increasing it will
% limit redundancies in the resulting path file.

verticeslist=[];
si=max(size(perim));
for t=1:step:si
    [nearestIndexMT,nearestValuesMT]=mesh_vertex_nearest(mesh_total.vertices,mesh_outer.vertices(perim(t),:));
    verticeslist= [verticeslist nearestIndexMT];
end

verticeslist=unique(verticeslist);

to my $freesurfer_home/matlab directly as a .m file. However, I'm still getting the same error:

Error in dsearchn (line 80)

[d(i),t(i)] = min(sum((x-yi).^2,2));

Error in mesh_vertex_nearest (line 29)

nearestIndex = dsearchn(vertices,points);

Error in reorganize_verticeslist (line 28)

[nextindex,nextvalue]=mesh_vertex_nearest(mesh_total.vertices(remaininglist,:),mesh_total.vertices(verticeslist(start_vertex),:));

Error in make_roi_paths (line 93)

reorglist = reorganize_verticeslist (mesh_total, A, mesh_outer, perim,

verticeslist, step);

ERROR: make_roi_paths did not complete successfully!

Darwin Vinas-iMac.local 11.4.2 Darwin Kernel Version 11.4.2: Thu Aug 23 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 x86_64

recon-all -s SFS026 exited with ERRORS at Thu Jan 30 14:26:16 MST 2014

Thanks,

Wanda

Wanda Truong, MSc