RadicalSiteIonizationMechanism (cdk 2.9 API)

java.lang.Object
- org.openscience.cdk.reaction.mechanism.RadicalSiteIonizationMechanism

All Implemented Interfaces:

IReactionMechanism
```
public class RadicalSiteIonizationMechanism
extends Object
implements IReactionMechanism
```
This mechanism extracts an atom because of the stabilization of a radical. It returns the reaction mechanism which has been cloned the IAtomContainer.

This reaction could be represented as Y-B-[C*] => [Y*] + B=C

Author:

miguelrojasch

Source code:
main

Belongs to CDK module:
reaction

Created on:

2008-02-10

Constructor Summary

Constructors
Constructor Description

RadicalSiteIonizationMechanism()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`IReaction`	`initiate(IAtomContainerSet atomContainerSet, ArrayList<IAtom> atomList, ArrayList<IBond> bondList)`	Initiates the process for the given mechanism.

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Constructor Detail
  - RadicalSiteIonizationMechanism
```
public RadicalSiteIonizationMechanism()
```
- Method Detail
  - initiate
```
public IReaction initiate(IAtomContainerSet atomContainerSet,
                          ArrayList<IAtom> atomList,
                          ArrayList<IBond> bondList)
                   throws CDKException
```
    Initiates the process for the given mechanism. The atoms to apply are mapped between reactants and products.
    
    Specified by:
    
    initiate in interface IReactionMechanism
    
    Parameters:
    
    atomContainerSet -
    
    atomList - The list of atoms taking part in the mechanism. Only allowed two atoms. The first atom is the atom which contains the ISingleElectron and the second third is the atom which will be removed the first atom
    
    bondList - The list of bonds taking part in the mechanism. Only allowed one bond. It is the bond which is moved
    
    Returns:
    
    The Reaction mechanism
    
    Throws:
    
    CDKException - if an error occurs during the reaction process. See documentation for individual reaction processes