Lusineh,

Which version of freesurfer do you have? To find out, type:

cat $FREESURFER_HOME/build-stamp.txt

Per the release notes page (which documents updates), a fix was included in v3.0.4 (and newer) that addresses a problem where the pial surface crosses the midline:

http://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes

So you may need to update to the latest version if you have pre v3.0.4.

Or you can get mris_make_surfaces_linux.gz here:

ftp://surfer.nmr.mgh.harvard.edu/pub/dist

then:

cp mris_make_surfaces_linux.gz $FREESURFER_HOME/bin cd $FREESURFER_HOME/bin gunzip mris_make_surfaces_linux.gz mv mris_make_surfaces_linux mris_make_surfaces chmod a+x mris_make_surfaces

Nick

On Mon, 2007-04-30 at 16:31 -0700, Lusineh Gharapetian wrote:

Hello,

I don't know how to edit a problem that I have run into on several slices in both hemispheres of multiple brains. The problem is that the pial surface line crosses into white matter. I have attached a couple of instances of this occurring. It happens on multiple slices in a row or as a single slice problem. I would greatly appreciate any advice on how to deal with this. Let me know if you need any further information. Thanks!

Sincerely,

Lusineh Gharapetian Staff Research Associate Multi Modal Imaging Lab (MMIL) UC San Diego

office. 858. 822.1818 email. lgharapetian@gmail.com

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer