Hi Bruce,

I'm sorry for the delayed reply.

I created a folder called "labels" inside each of my subject folder. Attached the output.

I tried to use mri_mergelabels -i label1 -i label2 -o outputlabel. Attached the command as well as the output.

*I am not sure if the output is correct and also, how should I get the total volume for each lobe out? *

Thank you so much for your help.

Regards, Heidi Foo

On Fri, Apr 29, 2016 at 8:43 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:

Hi Heidi

can you copy and paste the full command you ran and the screen output and send it to us? Also, what version are you running?

cheers Bruce

On Fri, 29 Apr 2016, Heidi Foo wrote:

Dear FreeSurfer Experts,

...

I am currently trying to run cortical parcellation on my subjects. However, I am getting error messages that the --outdir is unknown. This is the command I ran mri_annotation2label --s FS_PD002_1.nii --hemi lh --lobesStrict --outdir ./label

Is there a way I can resolve this issue?

Thank you so much for your kind attention.

Best Regards, Heidi Foo

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