Re: [Freesurfer] Skullstrip Delay

are you really trying to run an fMRI dataset through? recon-all will only work with T1-weighted anatomicals.

cheers Bruce On Fri, 2 Jul 2010, Riskin-Jones, Hannah wrote:

Hi,

I am attempting to run an fMRI data set through the freesurfer workflow and the skullstripping step seems to be delayed.

It has been stuck on the following command line for an inordinate amount of time.

First Search limited to translation only.

using real data threshold=28.0

Found translation: (-1.1, -8.0, -23.9): log p = -22300.7

Nine Parameter search. iteration 0 nscales = 0 ...

without an error message, I have no clues as to how to fix this problem. Any suggestions would be much appreciated!

Thank you so much,

Hannah