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#!/usr/bin/env python
"""
Display a tractogram and its density map (computed from Dipy) in rasmm,
voxmm and vox space with its bounding box.
"""
import argparse
from trx.workflows import tractogram_visualize_overlap
def _build_arg_parser():
p = argparse.ArgumentParser(description=__doc__,
formatter_class=argparse.RawTextHelpFormatter)
p.add_argument('in_tractogram', metavar='IN_TRACTOGRAM',
help='Tractogram filename. Format must be one of \n'
'trk, tck, vtk, fib, dpy, trx.')
p.add_argument('reference',
help='Reference anatomy for tck/vtk/fib/dpy file\n'
'support (nii or nii.gz).')
p.add_argument('--remove_invalid', action='store_true',
help='Removes invalid streamlines to avoid the density_map'
'function to crash.')
return p
def main():
parser = _build_arg_parser()
args = parser.parse_args()
tractogram_visualize_overlap(args.in_tractogram, args.reference,
args.remove_invalid)
if __name__ == "__main__":
main()
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