This routine reorders atoms within the residues
of MODEL so that they follow the order in the current residue topology
library.
Example:
# Example for: REORDER_ATOMS
# This will standardize the order of atoms in the model.
# Order the atoms according to a topology library:
READ_TOPOLOGY FILE = '$(LIB)/top_heav.lib'
READ_MODEL FILE = '1fas'
REORDER_ATOMS
WRITE_MODEL FILE = '1fas.ini1'
