Hi Gonzalo,

To use xopts, you can create a text file called expert.opts in the <subjID>/scripts/ directory. In the file, you can specify the threshold that you want. Then include this file name in your command line while running recon-all.

Instructions for xopts is at the end of this page here: http://surfer.nmr.mgh.harvard.edu/fswiki/Edits

-Khoa

On Mon, 1 Aug 2011, Gonzalo Rojas Costa wrote:

Hi:

In the web page "FSTutorial/TroubleshootingData - Free Surfer Wiki" appears "Try using an xopts script first to change the intensity thresholds being used"... What is a xopts script ?... How can I use a xopts script to change the intensity thresholds ?...

Sincerely,

Gonzalo Rojas Costa _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer