From baa44a9d1bdf8a462787fd4f4423b5db8b55e211 Mon Sep 17 00:00:00 2001
From: Stephen Smith <steve@fmrib.ox.ac.uk>
Date: Thu, 31 May 2007 14:28:07 +0000
Subject: [PATCH] *** empty log message ***
---
sienax | 8 +++++---
1 file changed, 5 insertions(+), 3 deletions(-)
diff --git a/sienax b/sienax
index c9116b7..ec9b43f 100755
--- a/sienax
+++ b/sienax
@@ -144,7 +144,8 @@ if [ $nseg = 2 ] ; then
S=`${FSLDIR}/bin/avwstats ${I}_stdmaskbrain_pve_1 -m -v`
xa=`echo $S | awk '{print $1}'`
xb=`echo $S | awk '{print $3}'`
- brain=`echo "2 k $xa $xb * $vscale * p" | dc -`
+ ubrain=`echo "2 k $xa $xb * 1 / p" | dc -`
+ nbrain=`echo "2 k $xa $xb * $vscale * 1 / p" | dc -`
else
if [ _$lm != _ ] ; then
${FSLDIR}/bin/avwmaths_32R $lm -bin -mul -1 -add 1 -mul ${I}_stdmaskbrain ${I}_stdmaskbrain
@@ -190,10 +191,11 @@ else
uwhite=`echo "2 k $xa $xb * 1 / p" | dc -`
nwhite=`echo "2 k $xa $xb * $vscale * 1 / p" | dc -`
echo "WHITE $nwhite $uwhite" >> ${I}.sienax
+
+ ubrain=`echo "2 k $uwhite $ugrey + 1 / p" | dc -`
+ nbrain=`echo "2 k $nwhite $ngrey + 1 / p" | dc -`
fi
-ubrain=`echo "2 k $uwhite $ugrey + 1 / p" | dc -`
-nbrain=`echo "2 k $nwhite $ngrey + 1 / p" | dc -`
echo "BRAIN $nbrain $ubrain" >> ${I}.sienax
${FSLDIR}/bin/overlay 1 1 -c ${I} -a ${I}_stdmaskbrain_seg 1.9 5 ${I}_render
--
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