Is $FREESURFER_HOME/matlab in your matlab path? Also, I wrote a new program called mri_coreg that replicates the functionality of spmregister. This is now the default (no need to spec an init method), and I encourage you to use it.

On 4/6/16 12:03 AM, Ajay Kurani wrote:

Hi Freesurfer Experts,

I was running bbregister and came across an issue. I have used previous versions of bbregister (FS 5.3.0 with spm8) with the --init-spm at it worked perfectly for a specific subject.

I recently installed FS dev 6.0 with SPM12b and ran bbregister --init-spm option with the same resting state scan, and it did not move at all. When looking at the terminal I saw that when matlab started up within bbregister, the command fs_spmreg was not found. I also installed spm8 and reran the subject with the same issue. When I changed the option to --init-fsl everything worked. I checked the matlab installation and everything looks fine, so I think the issue may be the fs_spmreg function not being found. I am not sure if there is an easy fix for this, but any help would be appreciated.

Thanks,

Ajay
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