Hello,
I am running into an issue with running preproc-sess on OSX as outlined here: http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg15896.html
I saw Doug posted a bug fix that should solve this problem, however, I am unable to access it from: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/getrunlist
Is there a way I can download this new version of getrunlist?
Thanks so much, Juli
Hello FS Experts,
Suppose we have two points on the cortical surface (pial for example), we want to know the distance between these two point along cortical surface (not direct distance). Does FS report this kind of distance? Any suggestion will be very appreciated.
Aize
This question comes up sometimes -- and the short answer is 'yes', there is a tool that can allow you to do this. Although it will be available in the next version of FS (5.1), it is still a bit rough around the edges. It is called 'mris_pmake' and to use it to determine the distance between two points, do:
mris_pmake --subject <subject> --hemi -<hemi> --surface0 <surface> --curv0 sulc --curv1 sulc --mpmOverlay euclidean --mpmProg pathFind --mpmArgs startVertex:<startArg>,endVertex:<endArg>
So, if you have a subject called 'ID1' and want to determine the shortest distance along the surface between vertex 11111 and vertex 33333 on the left hemisphere smoothwm, do:
mris_pmake --subject ID1 --hemi lh --surface0 smoothwm --curv0 sulc --curv1 sulc --mpmOverlay euclidean --mpmProg pathFind --mpmArgs startVertex:11111,endVertex:33333
Note, that this is *not* the geodesic, but is very close. The path is constrained to run along the surface mesh, so will in general be slightly longer than the geodesic.
On 4/1/11 12:28 , caoaize wrote:
Hello FS Experts,
Suppose we have two points on the cortical surface (pial for example), we want to know the distance between these two point along cortical surface (not direct distance). Does FS report this kind of distance? Any suggestion will be very appreciated.
Aize
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
It is very good to know FS has this function. It will be very helpful for us. Thanks.
Aize
Date: Fri, 1 Apr 2011 13:57:23 -0400 From: rudolph@nmr.mgh.harvard.edu To: caoaize@hotmail.com CC: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Distance between two points along cortical
This question comes up sometimes -- and the short answer is 'yes', there is a tool that can allow you to do this. Although it will be available in the next version of FS (5.1), it is still a bit rough around the edges. It is called 'mris_pmake' and to use it to determine the distance between two points, do:
mris_pmake --subject <subject> --hemi -<hemi> --surface0 <surface> --curv0 sulc --curv1 sulc --mpmOverlay euclidean --mpmProg pathFind --mpmArgs startVertex:<startArg>,endVertex:<endArg>
So, if you have a subject called 'ID1' and want to determine the shortest distance along the surface between vertex 11111 and vertex 33333 on the left hemisphere smoothwm, do:
mris_pmake --subject ID1 --hemi lh --surface0 smoothwm --curv0 sulc --curv1 sulc --mpmOverlay euclidean --mpmProg pathFind --mpmArgs startVertex:11111,endVertex:33333
Note, that this is *not* the geodesic, but is very close. The path is constrained to run along the surface mesh, so will in general be slightly longer than the geodesic.
On 4/1/11 12:28 , caoaize wrote:
Hello FS Experts,
Suppose we have two points on the cortical surface (pial for example), we want to know the distance between these two point along cortical surface (not direct distance). Does FS report this kind of distance? Any suggestion will be very appreciated.
Aize
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Hi Aize,
great circles on the ?h.sphere should be within about 15% of the true geodesic distance. We routinely use them to estimate distances.
cheers Bruce On Sat, 2 Apr 2011, caoaize wrote:
Hello FS Experts,
Suppose we have two points on the cortical surface (pial for example), we want to know the distance between these two point along cortical surface (not direct distance). Does FS report this kind of distance? Any suggestion will be very appreciated.
Aize
freesurfer@nmr.mgh.harvard.edu