No, you'll need to pass the new registration to mri_vol2surf. You should also check that freeview is producing the correct registration file. We've had several problems with it that are definitely fixed in 6.0, but not sure about 5.3. Try loading it in tkregister (--lta your.lta --reg your.reg --ltaout your.lta). In fact, I would probably just not use freeview to adjust the registration in 5.3, use tkregister.

On 3/23/16 7:55 AM, Elijah Mak wrote:

Hi Doug,

Thanks!

I manually tweaked the registration of the PET to T1 on a number of subjects to bring the mincost down to < 0.5. After saving the pet2free volume in Freeview, I noticed that a new .lta is produced in the same directory (i.e. pet2free_fsl.mgz.lta).

Will the option --regheader tell the subsequent commands (i.e. mri_vol2surf) to use the updated registration .lta instead of the original .dat that was produced via bbregister?

Best Wishes, Elijah

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