You should be able to redirect output from FEAT to be the input to the script where you define this variable with a pipe, |.
-----Original Message-----
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Benjamin A Philip
Sent: Thursday, September 29, 2011 8:27 PM
To: [log in to unmask]
Subject: [FSL] Unix $ variables in .fsf files
Is there any way to get a FSL .fsf file to read a $ variable set
outside the file? Specifically, I'd love to let my FEAT parameters call
$FSLDIR, to make sure they can run (and find the standard brain files)
on any computer. Obviously, I have tried setting the path names to
$FSLDIR/restofpath and the running the .fsf file from the command line,
but that leads to FSL looking for a directory starting with "$FSLDIR"
rather than the contents thereof.
Thanks,
--
Benjamin Philip, Ph.D.
Postdoctoral Fellow - Freylab
1227 Department of Psychology
University of Oregon
Eugene, OR 97403-1227
(541) 346-4953
[log in to unmask]
Office: 307 Straub Hall
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