it should not be taking that long. It must be hanging somewhere. Try re-running it with --debug as the first option. It will print out a bunch of stuff to the screen, but you should be able to see where it hangs (if it does).

doug

Furlong, Carolyn wrote:

Thanks Doug,

I have tried your suggestion and set the command make_average_subject running again. I has been going for several hours but there is no visible change/activity on the console, is this unusual?.

Also, there are only 13 subjects, how long would you expect this process to take per subject?

Best wishes

Carolyn

From: Doug Greve [mailto:greve@nmr.mgh.harvard.edu]
Sent: Wed 5/9/2007 6:21 PM
To: Furlong, Carolyn
Cc: Freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Make_average_subject error

you may be using a version that does not have this option. Try using these

doug

ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/make_average_subject
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/make_average_surface

Furlong, Carolyn wrote:

Hi all,

I tried running it again with --no-symlink but this error came up

ERROR: Flag --no-symlink unrecognized.

any advice?

Best wishes
Carolyn

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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358 
Fax: 617-726-7422

In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting