You should have brainmask.mgz after -autorecon1 though.

Jenni

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Nick Schmansky Sent: Thursday, August 10, 2006 6:55 PM To: Jiansong Xu Cc: Freesurfer Mailing List Subject: Re: [Freesurfer] no brain.tri and brain.mgz

The brain.mgz file won't appear until after the -autorecon2 stage.

Refer to this page for files output at each recon-all stage:

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

On Thu, 2006-08-10 at 15:16 -0700, Jiansong Xu wrote:

Dear Friends:

I'm playing with the tutorial.

I didn't get the brain.tri and brain.mgz files after the first step, see below for the command:

recon-all -subjid bert -autorecon1

Best

Jiansong

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