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Hi Dylan,

I call bbregister with --s in the same place you have it. Is it possible there is something wrong with $SUBJECTS_DIR when you are calling bbregister?

Matt.

On 2/21/22, 2:43 PM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Tisdall, Dylan" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of mtisdall@pennmedicine.upenn.edu> wrote:

Hi all,

Quick question on a puzzling error with bbregister version 7.1.1. When I run:

bbregister --s 126346 --mov mgz/7T_MEMPRAGE --init-reg 7Tto3Tinit.lta --reg 7Tto3T.lta --o 7TMEMPRAGE_warped.mgz --t1

I get the error:

ERROR: must spec a subject id

which I thought I'd done with the --s flag. What am I missing?

Even more odd, if I just move the to the end of the command, bbregister will run, but eventually fails with:

error: mghRead(/hom/mtisdall/Research/7TAnalysis/subject//subject-unknown/mri/orig.mgz, -1): could not open file

Is there something obvious I'm doing wrong with these two command lines that cause these behaviors?

Thanks, Dylan

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