From 1cf4a8d50c532617cefb9cacefbb8ad2ae73caab Mon Sep 17 00:00:00 2001
From: Stephen Smith <steve@fmrib.ox.ac.uk>
Date: Sat, 5 Apr 2008 10:36:01 +0000
Subject: [PATCH] *** empty log message ***
---
eddy_correct | 8 +++-----
1 file changed, 3 insertions(+), 5 deletions(-)
diff --git a/eddy_correct b/eddy_correct
index c3f3f89..a14ccf9 100644
--- a/eddy_correct
+++ b/eddy_correct
@@ -22,7 +22,7 @@ if [ `${FSLDIR}/bin/imtest $input` -eq 0 ];then
exit
fi
-fslroi $input $output $ref 1
+fslroi $input ${output}_ref $ref 1
fslsplit $input ${output}_tmp
full_list=`${FSLDIR}/bin/imglob ${output}_tmp????.*`
@@ -30,12 +30,10 @@ full_list=`${FSLDIR}/bin/imglob ${output}_tmp????.*`
for i in $full_list ; do
echo processing $i
echo processing $i >> ${output}.ecclog
- ${FSLDIR}/bin/flirt -in $i -ref $output -nosearch -o $i -paddingsize 1 >> ${output}.ecclog
+ ${FSLDIR}/bin/flirt -in $i -ref ${output}_ref -nosearch -o $i -paddingsize 1 >> ${output}.ecclog
done
fslmerge -t $output $full_list
-/bin/rm ${output}_tmp????.*
-
-
+/bin/rm ${output}_tmp????.* ${output}_ref*
--
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