On Fri, Mar 17, 2017 at 4:11 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

Hi Feilong, you do not need to use --init-best with bbregister anymore.
It automatically uses --init-coreg (a remake of the spm coreg) which is
the best as far a I can tell

On 03/17/2017 02:47 PM, Feilong Ma wrote:

> Hi FreeSurfer Developers,
>
> I'm having trouble using bbregister with the `--init-best` flag, a
> minimal example and error message is like this:
> $> bbregister --s ag00 --mov data/ag00/align/raiders/run00_ref.nii.gz
> --init-best --bold --lta data/ag00/align/raiders/run00_ref_to_anat.lta
> ERROR: cannot spec an init method with --init-best
>
> It seems `InitCoreg` is set to 1 by default in the code of bbregister.
> Therefore, when `--init-best` is also set, it would always trigger the
> conflict detection and exit with the error message.
>
> Here are some related version information:
> - FreeSurfer version:
> freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
> - bbregister version: $Id: bbregister,v 1.75 2016/05/10 20:02:28 greve
> Exp $
> - OS: CentOS Linux release 7.3.1611 (Core)
>
> Best,
> Feilong
>
>
>

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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

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