From a5e065d9d106a15a6284aeaf03997f6117d3706a Mon Sep 17 00:00:00 2001
From: Stephen Smith <steve@fmrib.ox.ac.uk>
Date: Thu, 22 Sep 2005 13:19:20 +0000
Subject: [PATCH] *** empty log message ***
---
siena_flow2tal | 5 ++++-
1 file changed, 4 insertions(+), 1 deletion(-)
diff --git a/siena_flow2tal b/siena_flow2tal
index 49a9161..0296d4b 100755
--- a/siena_flow2tal
+++ b/siena_flow2tal
@@ -4,7 +4,7 @@
#
# Stephen Smith, FMRIB Image Analysis Group
#
-# Copyright (C) 2002-2004 University of Oxford
+# Copyright (C) 2002-2005 University of Oxford
#
# SHCOPYRIGHT
@@ -49,6 +49,9 @@ ${FSLDIR}/bin/convert_xfm -omat ${A}_halfwayto_${B}_to_tal.mat -concat ${A}_to_t
# dilate flow image, -> standard space -> mask with ss edge image -> blur -> remask
${FSLDIR}/bin/avwmaths ${A}_to_${B}_flow -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil ${A}_to_${B}_flow_dil
+${FSLDIR}/bin/avwmaths ${B}_to_${A}_flow -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil -dil ${A}_to_${B}_flow_dilback
+${FSLDIR}/bin/avwmaths ${A}_to_${B}_flow_dil -sub ${A}_to_${B}_flow_dilback -div 2 ${A}_to_${B}_flow_dil
+/bin/rm ${A}_to_${B}_flow_dilback*
${FSLDIR}/bin/flirt -in ${A}_to_${B}_flow_dil -ref ${FSLDIR}/etc/standard/avg152T1_brain -out ${A}_to_${B}_flow_to_tal -applyxfm -init ${A}_halfwayto_${B}_to_tal.mat
${FSLDIR}/bin/avwmaths ${A}_to_${B}_flow_to_tal -mas ${FSLDIR}/etc/standard/avg152T1_edges ${A}_to_${B}_flow_to_tal
${FSLDIR}/bin/ip ${A}_to_${B}_flow_to_tal ${A}_to_${B}_flow_to_tal 0 -s 10
--
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