B b@s0dZddlmZddlmZGdddeZdS)z'Model class, used in Structure objects.)Entity)IC_Chainc@s^eZdZdZdddZddZddZd d Zd d Zde ddddZ de ddddZ dS)ModelzThe object representing a model in a structure. In a structure derived from an X-ray crystallography experiment, only a single model will be present (with some exceptions). NMR structures normally contain many different models. NcCs,d|_|dkr||_n||_t||dS)zYInitialize. Arguments: - id - int - serial_num - int MN)level serial_numr__init__)selfidrr ,lib/python3.7/site-packages/Bio/PDB/Model.pyrs zModel.__init__cCs d|S)zReturn model identifier.z )Zget_id)r r r r __repr__$szModel.__repr__ccs|EdHdS)zReturn chains.Nr )r r r r get_chains(szModel.get_chainsccs x|D]}|EdHq WdS)zReturn residues.N)r)r cr r r get_residues,szModel.get_residuesccs x|D]}|EdHq WdS)z Return atoms.N)r)r rr r r get_atoms1szModel.get_atomsF)verbosereturncCs x|D]}||q WdS)zCreate/update internal coordinates from Atom X,Y,Z coordinates. Internal coordinates are bond length, angle and dihedral angles. :param verbose bool: default False describe runtime problems N)ratom_to_internal_coordinates)r rchnr r r r6sz"Model.atom_to_internal_coordinatescCs x|D]}||q WdS)zCreate/update atom coordinates from internal coordinates. :param verbose bool: default False describe runtime problems :raises Exception: if any chain does not have .pic attribute N)rinternal_to_atom_coordinates)r rrr r r rAsz"Model.internal_to_atom_coordinates)N)F)F) __name__ __module__ __qualname____doc__rr rrrboolrrr r r r r s  rN)rZBio.PDB.EntityrZBio.PDB.internal_coordsrrr r r r s