Hello Freesurfer Experts,

I am currently trying to run the Linear Mixed Effects Models described in the wiki here:
http://surfer.nmr.mgh.harvard.edu/fswiki/LinearMixedEffectsModels

And I am running into difficulties that are fairly well described by the last message in this previous mail thread:
https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg25787.html

Can you please clarify the variable "ni"? 

the following command:
[M,Y,ni] = sortData(M,1,Y,sID);
results in:
??? Error: File: sortData.m Line: 59 Column: 6
Expression or statement is incorrect--possibly unbalanced (, {, or [.

do i need to build "ni" ahead of time?

You probably don't need to know this, but I am using data generated by Freesurfer version 5.1, on matlab 7.8.0 (R2009a), which I gather will cause a few problems further down the line. 

Thank you for your help,
-Eric