org.openscience.cdk.libio.cml

Class MDMoleculeCustomizer

java.lang.Object

org.openscience.cdk.libio.cml.MDMoleculeCustomizer

All Implemented Interfaces:

ICMLCustomizer

public class MDMoleculeCustomizer
extends Object
implements ICMLCustomizer

Customize persistence of MDMolecule by adding support for residues and charge groups.

Author:

ola

Belongs to the set:

libio-cml-customizers

Constructor Summary

Constructors

Constructor and Description
MDMoleculeCustomizer()

Method Summary

Methods

Modifier and Type	Method and Description
void	customize(IAtomContainer molecule, Object nodeToAdd) Customize Molecule
void	customize(IAtom atom, Object nodeToAdd) Customize Atom
void	customize(IBond bond, Object nodeToAdd) No customization for bonds

Methods inherited from class java.lang.Object

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

Constructor Detail

MDMoleculeCustomizer

public MDMoleculeCustomizer()

Method Detail

customize

public void customize(IBond bond,
             Object nodeToAdd)
               throws Exception

No customization for bonds

Specified by:

customize in interface ICMLCustomizer

Parameters:

bond - Bond to base the customization on

nodeToAdd - XOM Element to customize

Throws:

Exception - thrown if nodeToAdd is not an instance of nu.xom.Element

customize

public void customize(IAtom atom,
             Object nodeToAdd)
               throws Exception

Customize Atom

Specified by:

customize in interface ICMLCustomizer

Parameters:

atom - Atom to base the customization on

nodeToAdd - XOM Element to customize

Throws:

Exception - thrown if nodeToAdd is not an instance of nu.xom.Element

customize

public void customize(IAtomContainer molecule,
             Object nodeToAdd)
               throws Exception

Customize Molecule

Specified by:

customize in interface ICMLCustomizer

Parameters:

molecule - Molecule to base the customization on

nodeToAdd - XOM Element to customize

Throws:

Exception - thrown if nodeToAdd is not an instance of nu.xom.Element