Text provided by Rudy van den Brink

How to call FSL functions in matlabHow to call FSL functions in matlab item options
From: Brink, R.L. van den

Sent: Friday, October 31, 2014 11:26 AM

 

Subject: matlab & FSL

 

Hi all,

 

This works perfectly.

 

I now load the fsl/5.0.4 module in my .bashrc, and when I type system(‘fslmaths’) in the matlab command line I still get the same error, as expected. If I add the following to my matlab script however:

 

addpath([getenv('FSLDIR') '/etc/matlab/']) %add the fsl folder with the call_fsl function

 

and then everything works fine when I type:

 

[status, output] = call_fsl('fslmaths')

 

The call_fsl function also handles fsl_sub commands so you can still parallelize your processing within one matlab script. 

 

Cheers,

Rudy