Hello Joost,
Sorry for the delay, I was away from my office for two weeks. I would need a few more info on your problem: Did you successfully launch lGI on other subjects? And if yes, were you able to check the output using the overlay in tksurfer? If neither of your subjects worked, did you check the outer surface in tkmedit? (the outer surface should warp the pial surface).
And if you already checked both of these potential issues, you can send me the pial surface that does not work, so that I can have a look at it.
Marie
On 30 sept. 08, at 13:35, j janssen wrote:
Hi,
i am using version 4.0.5. for two brains out of a larger study, localGI exits with errors, the error message is similar in both brains and looks like:
lGI for vertex number 49901 of the outer mesh is 1.9168 lGI for vertex number 50001 of the outer mesh is 2.4523 ratio saved at 50001 lGI for vertex number 50101 of the outer mesh is 3.2668 ... remeasuring lGI value for vertex iV = 50201. It may take a few minutes. WARNING -- Problem for vertex iV = 50201, lGI value is aberrantly high (lGI=43.3799)... ...lGI computation will be stopped. This may be caused by topological defects, check mris_euler_number on the pial surface.
mris_euler_number ?h.pial gives 0 defects. i ran localGI on both brains several times and got the same error message at the same vertex number (for lh). empirically, surfaces look reasonable.
a similar message was posted some time ago:
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/ msg07281.html
but no reply.
any ideas?
thanks, -joost
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