9 Sep
2014
9 Sep
'14
7:45 a.m.
Dear Freesurfers,
Is there a way of calling freesurfer-scripts from within MATLAB? I know there are some setups needed to make MATLAB understand where it can find the commands (I have done this before with FSL). I am using bash, and when I type the Freesurfer commands in a terminal by hand, they work. So I am guessing it must have to do with setting up the environment:
freesurf_path ='Applications/freesurfer'; setenv('FREESURFDIR',freesurf_path)
setenv('FREESURFOUTPUTTYPE','NIFTI_GZ') curpath = getenv('PATH'); setenv('PATH',sprintf('%s:%s',fullfile(freesurf_path,'bin'),curpath));
Thanks a lot for any help, Barbara