Package org.openscience.cdk.reaction

Interface IReactionMechanism

All Known Implementing Classes:

AdductionLPMechanism, AdductionPBMechanism, HeterolyticCleavageMechanism, HomolyticCleavageMechanism, RadicalSiteIonizationMechanism, RadicalSiteRearrangementMechanism, RearrangementChargeMechanism, RemovingSEofBMechanism, RemovingSEofNBMechanism, SharingElectronMechanism, TautomerizationMechanism

public interface IReactionMechanism

Classes that implement this interface are reaction mechanisms.

Author:

Miguel Rojas

Source code:

main

Belongs to CDK module:

reaction

Method Summary

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

Method Details

initiate

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.

Parameters:

atomContainerSet -

atomList - The list of atoms taking part in the mechanism

bondList - The list of bonds taking part in the mechanism

Returns:

The Reaction mechanism

Throws:

CDKException - if an error occurs during the reaction process. See documentation for individual reaction processes