#! /bin/tcsh -f

#
# morph_rgb-lh
#
#
#
# Copyright © 2021 The General Hospital Corporation (Boston, MA) "MGH"
#
# Terms and conditions for use, reproduction, distribution and contribution
# are found in the 'FreeSurfer Software License Agreement' contained
# in the file 'LICENSE' found in the FreeSurfer distribution, and here:
#
# https://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferSoftwareLicense
#
# Reporting: freesurfer@nmr.mgh.harvard.edu
#
#


set hemi = lh;

if($#argv != 1) then
  echo "USAGE: morph_rgb-$hemi subjectid"
  exit 1;
endif
set subjectid = $1;

set SubjAnatDir = $SUBJECTS_DIR/$1;
if(! -e $SubjAnatDir ) then
  echo "ERROR: $SubjAnatDir does not exist"
  exit 1;
endif

pushd $SUBJECTS_DIR/$1/
touch NOTES
echo "-----------------" >> NOTES
echo $0 $* >> NOTES
whoami >> NOTES
date >> NOTES
hostname >> NOTES
popd

setenv DISPLAY :0.0
mkdir -p $SubjAnatDir/rgb

# specify -tiff to write out tiff files intead of rgbs

set cmd = "mris2rgb -o $1.reg -both -c $SubjAnatDir/surf/$hemi.sulc "
set cmd = "$cmd -canon $SubjAnatDir/surf/$hemi.sphere.reg "
set cmd = "$cmd  $SubjAnatDir/surf/$hemi.sphere.reg "
set cmd = "$cmd  $SubjAnatDir/rgb"

echo "-------------------------------------"
pwd
echo $cmd
echo "-------------------------------------"
$cmd
if($status) then
  echo "mris2rgb exited with errors"
  exit 1;
endif

echo "morph_rgb-$hemi completed SUCCESSUFLLY"
exit 0;


#mris2rgb -o $1.dist_new -both -c $SubjAnatDir/surf/$hemi.sulc \
#       -canon $SubjAnatDir/surf/$hemi.sphere.dist_new \
#         $SubjAnatDir/surf/$hemi.sphere.dist_new \
#         $SubjAnatDir/rgb