From 5e07b016f40a733de242a652b65e208fcac90570 Mon Sep 17 00:00:00 2001
From: Stephen Smith <steve@fmrib.ox.ac.uk>
Date: Sat, 10 Feb 2007 07:55:19 +0000
Subject: [PATCH] *** empty log message ***
---
siena_flow2std | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/siena_flow2std b/siena_flow2std
index 6ed198c..e266b2c 100755
--- a/siena_flow2std
+++ b/siena_flow2std
@@ -42,7 +42,7 @@ if [ ! -f ${A}_to_std.mat ] ; then
if [ `${FSLDIR}/bin/imtest ${A}_brain` = 0 ] ; then
${FSLDIR}/bin/bet $A ${A}_brain
fi
- ${FSLDIR}/bin/flirt -ref ${FSLDIR}/etc/standard/avg152T1_brain -in ${A}_brain -omat ${A}_to_std.mat
+ ${FSLDIR}/bin/flirt -ref ${FSLDIR}/etc/standard/avg152T1_brain -in ${A}_brain -omat ${A}_to_std.mat -o ${A}_to_std
fi
${FSLDIR}/bin/convert_xfm -omat ${A}_halfwayto_${B}_inv.mat -inverse ${A}_halfwayto_${B}.mat
${FSLDIR}/bin/convert_xfm -omat ${A}_halfwayto_${B}_to_std.mat -concat ${A}_to_std.mat ${A}_halfwayto_${B}_inv.mat
@@ -59,6 +59,6 @@ ${FSLDIR}/bin/avwmaths ${A}_to_${B}_flow_to_std -mas ${FSLDIR}/etc/standard/avg1
# cleanup
if [ $debug = 0 ] ; then
- /bin/rm -f ${A}_halfwayto_${B}_inv.mat `$FSLDIR/bin/imglob ${A}_brain.* ${A}_to_${B}_flow_dil.*`
+ /bin/rm -f ${A}_halfwayto_${B}_inv.mat `$FSLDIR/bin/imglob -oneperimage ${A}_brain.* ${A}_to_${B}_flow_dil.* ${A}_to_std.*`
fi
--
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