parmed.gromacs.GromacsTopologyFile
==================================

.. currentmodule:: parmed.gromacs

.. autoclass:: GromacsTopologyFile

   
   .. automethod:: __init__

   
   .. rubric:: Methods

   .. autosummary::
   
      ~GromacsTopologyFile.__init__
      ~GromacsTopologyFile.add_atom
      ~GromacsTopologyFile.add_atom_to_residue
      ~GromacsTopologyFile.assign_bonds
      ~GromacsTopologyFile.copy
      ~GromacsTopologyFile.createSystem
      ~GromacsTopologyFile.from_structure
      ~GromacsTopologyFile.get_box
      ~GromacsTopologyFile.get_coordinates
      ~GromacsTopologyFile.has_NBFIX
      ~GromacsTopologyFile.id_format
      ~GromacsTopologyFile.is_changed
      ~GromacsTopologyFile.join_dihedrals
      ~GromacsTopologyFile.load_dataframe
      ~GromacsTopologyFile.omm_add_constraints
      ~GromacsTopologyFile.omm_angle_force
      ~GromacsTopologyFile.omm_bond_force
      ~GromacsTopologyFile.omm_cmap_force
      ~GromacsTopologyFile.omm_dihedral_force
      ~GromacsTopologyFile.omm_gbsa_force
      ~GromacsTopologyFile.omm_improper_force
      ~GromacsTopologyFile.omm_nonbonded_force
      ~GromacsTopologyFile.omm_out_of_plane_bend_force
      ~GromacsTopologyFile.omm_pi_torsion_force
      ~GromacsTopologyFile.omm_rb_torsion_force
      ~GromacsTopologyFile.omm_set_virtual_sites
      ~GromacsTopologyFile.omm_stretch_bend_force
      ~GromacsTopologyFile.omm_torsion_torsion_force
      ~GromacsTopologyFile.omm_trigonal_angle_force
      ~GromacsTopologyFile.omm_urey_bradley_force
      ~GromacsTopologyFile.parametrize
      ~GromacsTopologyFile.prune_empty_terms
      ~GromacsTopologyFile.read
      ~GromacsTopologyFile.save
      ~GromacsTopologyFile.split
      ~GromacsTopologyFile.strip
      ~GromacsTopologyFile.to_dataframe
      ~GromacsTopologyFile.unchange
      ~GromacsTopologyFile.update_dihedral_exclusions
      ~GromacsTopologyFile.visualize
      ~GromacsTopologyFile.write
      ~GromacsTopologyFile.write_cif
      ~GromacsTopologyFile.write_pdb
      ~GromacsTopologyFile.write_psf
   
   

   
   
   .. rubric:: Attributes

   .. autosummary::
   
      ~GromacsTopologyFile.ANGLE_FORCE_GROUP
      ~GromacsTopologyFile.BOND_FORCE_GROUP
      ~GromacsTopologyFile.CMAP_FORCE_GROUP
      ~GromacsTopologyFile.DIHEDRAL_FORCE_GROUP
      ~GromacsTopologyFile.IMPROPER_FORCE_GROUP
      ~GromacsTopologyFile.NONBONDED_FORCE_GROUP
      ~GromacsTopologyFile.OUT_OF_PLANE_BEND_FORCE_GROUP
      ~GromacsTopologyFile.PI_TORSION_FORCE_GROUP
      ~GromacsTopologyFile.RB_TORSION_FORCE_GROUP
      ~GromacsTopologyFile.STRETCH_BEND_FORCE_GROUP
      ~GromacsTopologyFile.TORSION_TORSION_FORCE_GROUP
      ~GromacsTopologyFile.TRIGONAL_ANGLE_FORCE_GROUP
      ~GromacsTopologyFile.UREY_BRADLEY_FORCE_GROUP
      ~GromacsTopologyFile.box
      ~GromacsTopologyFile.box_vectors
      ~GromacsTopologyFile.combining_rule
      ~GromacsTopologyFile.coordinates
      ~GromacsTopologyFile.positions
      ~GromacsTopologyFile.topology
      ~GromacsTopologyFile.velocities
      ~GromacsTopologyFile.view