Hi Marie, Yes, I'm using matlab R3013a. In $FREESURFER_HOME/matlab folder I don't have a file called SearchProjectionOnPial.m. Should I create it and paste the updated function?
Thanks for your help!! Wanda On 30 January 2014 15:09, Marie Schaer <marie.sch...@unige.ch> wrote: > > Hi Wanda, > > I'm not sure to understand your problem. Do you get an error because of > using matlab 2013? If yes, I'm not sure to understand whether you modified > the SearchProjectionOnPial.m function properly. > > Can you download the updated function there: > http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg30506.html > and copy it in the $FREESURFER_HOME/matlab folder (replace the older one > with this one). > > Let me know how it works, > > Marie > > On Jan 30, 2014, at 1:50 PM, Wanda Truong <wanda.truong...@gmail.com> > wrote: > > 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 > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > > > -- Wanda Truong, MSc
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