File: optimalsmooth.sh

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ants 1.9.2%2Bsvn680.dfsg-4
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#!/bin/sh 

echo  " sh $0 outputprefix " 
if [ $# -lt 1 ] ; then 
exit
fi
 
export ANTSPATH=${ANTSPATH:="/usr/lib/ants/"} 
SUB=$1 
TH=${SUB}thicknorm.nii.gz
JA=${SUB}logjacobian.nii 
MK=${SUB}mask.nii.gz 
OUTT=${SUB}smooththick.nii.gz 
OUTJ=${SUB}smoothjac.nii.gz 
REPS=5
  ${ANTSPATH}SurfaceBasedSmoothing $TH 1.5 $MK $OUTT $REPS
  ${ANTSPATH}SurfaceBasedSmoothing $JA 1.5 $MK $OUTJ $REPS