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object --+ | StructureBuilder.StructureBuilder --+ | object --+ | | | PDB.RecordProcessor --+ | PDBStructureBuilder
Builds a new Structure object by loading a PDB file.
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Inherited from Inherited from Inherited from |
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Inherited from |
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This methods needs to be reimplemented in a functional subclass. This function is called with the file object (or any other object passed in to build a Structure from) to begin the reading process. This is usually used to open the source file.
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Override load_atom to maintain a serial_num->atm map.
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This method needs to be reimplemented in a functional subclass. The subclassed read_atoms method should call load_atom once for every atom in the structure, and should not call any other load_* methods.
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This method needs to be reimplemented in a functional subclass. The subclassed read_metadata method should call the various load_* methods to set non-atom coordinate data for the Structure.
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Complicated method. Required arguments are: rec = PDB record atm1/2 = Atom object, if you want to override the lookup chain_id_field1/2: PDB field name for the chain ID res_seq1/2_field: PDB field for the residue sequence num icode1/2_field: PDB field for the residue insertion code name1/2_field: PDB field for the atom name atl_loc1/2: PDB filed name for the atom alt_loc symop1/2_field: PDB field name for the atom symmetry operation chain_id1/2: override the chain ID frag_id1/2: override the fragmetn ID name1/2: override the atom name alt_loc1/2: override the atom alt_loc |
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