Problem with automask

Hi there

I have some problems with the normalisation step. First of all, do I need to run automask if I want to use normalize by using EPI tamplates? What is the best normalisation step? EPI or T1?

If I run automask I get the following error (see attached file).

If I run normalisation without automask, I get an error saying that the automaks does not exist, so I assume I need automask to run the normalization?

Any help is very much appreciated.

Thanks a lot in advance



Automask Error message.docx15.18 KB


1. You can skip Automask. It can help for coregistration between functional images and T1 images. But it can be skipped.

2. New Segment + DARTEL may be the best.

3. You have to install image processing toolbox to perform this step.

4. Re-run from start and check off "automask" can help.