On 10 Jun 2016, at 18:10, shi yao wang <wangshiyao2009@gmail.com> wrote:

Dear FSL expert: 

Firstly, I would like to thank for the reply from Douglas. Thank you for your suggestion! aparcstats2table is working!. 

Then, I have another question about the brainstem substructures. 

According to the guideline, https://surfer.nmr.mgh.harvard.edu/fswiki/MatlabRuntime

I download the environment and successfully installed. However, when I running command 

" recon-all -s subject -brainstem-structures"

it shows wrong message 

"ERROR: Flag -brainstem-structures unrecognized.

-s 201 -brainstem-structures" 

So how can I fix it? Is that due to FSL version problem? If yes, how can I update to freesurfer 6.0?

thanks!

Lawrence

Emory. 

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