org.rcsb.mmtf.decoder

Class DecoderUtils

java.lang.Object

org.rcsb.mmtf.decoder.DecoderUtils

public class DecoderUtils
extends Object

A class of static functions to be used to aid decoding from StructureDataInterface to StructureAdapterInterface.

Author:

Anthony Bradley

Constructor Summary

Constructors

Constructor and Description
DecoderUtils()

Method Summary

Modifier and Type	Method and Description
static void	addEntityInfo(StructureDataInterface dataApi, StructureAdapterInterface structInflator) Add the entity info to the structure.
static void	addHeaderInfo(StructureDataInterface dataApi, StructureAdapterInterface structInflator) Add ancilliary header information to the structure.
static void	addInterGroupBonds(StructureDataInterface dataApi, StructureAdapterInterface structInflator) Generate inter group bonds.
static void	addXtalographicInfo(StructureDataInterface dataApi, StructureAdapterInterface structInflator) Add the crystallographic data to the structure.
static void	generateBioAssembly(StructureDataInterface dataApi, StructureAdapterInterface structInflator) Parses the bioassembly data and inputs it to the structure inflator

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

DecoderUtils

public DecoderUtils()

Method Detail

generateBioAssembly

public static void generateBioAssembly(StructureDataInterface dataApi,
                                       StructureAdapterInterface structInflator)

Parses the bioassembly data and inputs it to the structure inflator

Parameters:

dataApi - the interface to the decoded data

structInflator - the interface to put the data into the client object

addInterGroupBonds

public static void addInterGroupBonds(StructureDataInterface dataApi,
                                      StructureAdapterInterface structInflator)

Generate inter group bonds. Bond indices are specified within the whole structure and start at 0.

Parameters:

dataApi - the interface to the decoded data

structInflator - the interface to put the data into the client object

addHeaderInfo

public static void addHeaderInfo(StructureDataInterface dataApi,
                                 StructureAdapterInterface structInflator)

Add ancilliary header information to the structure.

Parameters:

dataApi - the interface to the decoded data

structInflator - the interface to put the data into the client object

addXtalographicInfo

public static void addXtalographicInfo(StructureDataInterface dataApi,
                                       StructureAdapterInterface structInflator)

Add the crystallographic data to the structure.

Parameters:

dataApi - the interface to the decoded data

structInflator - the interface to put the data into the client object

addEntityInfo

public static void addEntityInfo(StructureDataInterface dataApi,
                                 StructureAdapterInterface structInflator)

Add the entity info to the structure.

Parameters:

dataApi - the interface to the decoded data

structInflator - the interface to put the data into the client object