#!/bin/tcsh

## This script warps the FT subject anatomy to MNI space,
##  for later use in afni_proc.py

# Set the subject ID here

set sub = FT

# This is the input subject T1-weighted anatomical dataset

set anat_dset = ${sub}_anat+orig.HEAD

# If it does not exist, complain and quit

if( ! -f $anat_dset )then
  echo "** ERROR: cannot find dataset $anat_dset"
  exit 1
endif

# Carry out the warping with the @SSwarper script.
# The base dataset will be found in the AFNI binaries
#  directory - often $HOME/abin
# The results will be stored in directory anat_warped,
#  which @SSwarper will create if it does not exist now.

@SSwarper -input $anat_dset  \
          -subid $sub        \
          -odir  anat_warped \
          -base  MNI152_2009_template_SSW.nii.gz

exit 0