*** empty log message ***

Makefile

@@ -2,6 +2,6 @@ include ${FSLCONFDIR}/default.mk
 
 PROJNAME = misc_scripts
 
-SCRIPTS = regscript remove_vols replacevols replace_and_average_fmrib linkbedpost ocmr_preproc correct_and_average
+SCRIPTS = regscript remove_vols replacevols replace_and_average_fmrib linkbedpost ocmr_preproc correct_and_average eddy_correct
 
 all:

eddy_correct

+#!/bin/sh
+
+#   Copyright (C) 2004 University of Oxford
+#
+#   SHCOPYRIGHT
+
+Usage() {
+    echo ""
+    echo "Usage: eddy_correct <4dinput> <4doutput> <reference_no>"
+    echo ""
+    exit
+}
+
+[ "$3" = "" ] && Usage
+
+input=`${FSLDIR}/bin/remove_ext ${1}`
+output=`${FSLDIR}/bin/remove_ext ${2}`
+ref=${3}
+
+if [ `${FSLDIR}/bin/imtest $input` -eq 0 ];then
+    echo "Input does not exist or is not in a supported format"
+    exit
+fi
+
+avwroi $input $output $ref 1
+
+avwsplit $input
+full_list=`${FSLDIR}/bin/imglob -oneperimage vol*`
+
+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
+done
+
+avwmerge -t $output $full_list
+
+/bin/rm vol*
+