Dear Kimi,

When you process the scans longitudinally with FreeSurfer, the file base-tps should be created in the subject directory of the template. Isn’t this the case?

Cheers,

/Eugenio

Juan Eugenio Iglesias http://www.jeiglesias.com

On 19 Sep 2022, at 01:02, Raikkonen Kimi <akdaus2016@gmail.commailto:akdaus2016@gmail.com> wrote:

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Dear FreeSurfer,

Hi, I was trying to run longitudinal analysis of the hippocampus and amygdala segmentation pipeline after running the main FreeSurfer longitudinal pipeline.

I ran segmentHA_T1_long.sh 101_MRI1.long.101_template segmentHA_T1_long.sh 101_MRI2.long.101_template segmentHA_T1_long.sh 101_MRI3.long.101_template etc.

but I got the following error message: List of time points: /study/101_MRI1.long.101_template/base-tps does not exist

I think I’ve headed the wrong direction, I was wondering how to do the list of time points for a subject. Thanks so much for your help in advance.

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