Thanks a lot for your email, Saskia.

Does this happen for more than one subject? Can you reproduce the error?

Cheers,

Juan Eugenio Iglesias

ERC Senior Research Fellow

Centre for Medical Image Computing (CMIC)

University College London

Research staff

Martinos Center for Biomedical Imaging

Massachusetts General Hospital

Research Affiliate

Computer Science and Artificial Intelligence Laboratory (CSAIL)

Massachusetts Institute of Technology

Lecturer on Radiology

Harvard Medical School

http://www.jeiglesias.com

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Koch, S.B.J. (Saskia)" <S.Koch@donders.ru.nl>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Friday, 18 January 2019 at 09:46
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Longitudinal subfields segmentation single time point

External Email - Use Caution

Dear FreeSurfer Developers,

I am attempting to run the longitudinal hippocampal subfields segmentation, using the development version of FreeSurfer. This works perfect for subjects with multiple data time points, but I get the following error for subjects for which I have a single data time point (see attachment for the error log):

*******************

Global iteration 2

*******************

***** Estimating subject-specific atlas *****

Error using kvlGEMSMatlab

/autofs/space/panamint_005/users/iglesias/software/freesurfer/GEMS2/Matlab/kvlMatlabObjectArray.cxx:82:

itk::ERROR: MatlabObjectArray(0x7f8686741c40): Trying to access non-existing object (25)

Error in kvlGetOptimizer (line 11)

Error in SegmentSubfieldsT1Longitudinal (line 1155)

Is it possible to run this longitudinal module on subjects with a single time point? Any thoughts on how to troubleshoot this?

FreeSurfer version: freesurfer-Linux-centos7_x86_64-dev-20180118-d073f7e

Platform: CentOS Linux 7 (Core)

Uname -a: Linux mentat003.dccn.nl 3.10.0-693.17.1.el7.x86_64 #1 SMP Thu Jan 25 20:13:58 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux

Thanks for your help!

Saskia