That is strange. The -autorecon2-wm should have changed those surfaces. What's in your xopts file? Can you load the lh.orig.nofix surface in tkmedit to see if that has changed?

doug

Krishna Srihasam wrote:

Hi,

I am trying to generate surfaces of a monkey brain and I have run into some problem after the initial surface creation. I had some problems with wm.mgz and I corrected them (check the two images I have attached). I then ran

recon-all -autorecon2-wm -subjid George -noaseg –xopts-use –nocortribbon

The pial and wm surfaces output was exactly similar to the older one (i.e. before the white matter edits).I , then, tried running recon-all with

recon-all -autorecon2-pial -subjid George -noaseg –xopts-use –nocortribbon

with pretty much the same result. Any help , suggestions or input is more that welcome.

Regards,

Krishna

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