[Swift-commit] r8460 - SwiftTutorials/OHBM_2013-06-16

[wozniak at ci.uchicago.edu]

Author: wozniak
Date: 2015-05-28 19:57:06 -0500 (Thu, 28 May 2015)
New Revision: 8460

Modified:
   SwiftTutorials/OHBM_2013-06-16/align.sh
Log:
Final version


Modified: SwiftTutorials/OHBM_2013-06-16/align.sh
===================================================================
--- SwiftTutorials/OHBM_2013-06-16/align.sh	2015-05-22 18:27:55 UTC (rev 8459)
+++ SwiftTutorials/OHBM_2013-06-16/align.sh	2015-05-29 00:57:06 UTC (rev 8460)
@@ -1,11 +1,13 @@
 #!/bin/sh
 
+AIR5=/root/AIR5.3.0
+
 ref=$1      # Input:  reference volume
 anat=$2     # Input:  subject volume
 resliced=$3 # Ouput:  rrealigned and resliced volume
 
 time $AIR5/bin/alignlinear $ref $anat init.warp \
-  -m 15 -t1 55 -t2 55 -x 1 -r 8 -c 0.1 -h 8 
+  -m 15 -t1 55 -t2 55 -x 1 -r 8 -c 0.1 -h 8
 time $AIR5/bin/align_warp  $ref $anat refined.warp \
   -m 1 12 -b1 .1 .1 .1  -b2 .1 .1 .1 -f init.warp -h 10000 -s 1024 2 2 -c .01
 time $AIR5/bin/reslice refined.warp $resliced -a $anat