meshi.energy.pairwiseNonBondedTerms.excludedVol
Class ExcludedVol

java.lang.Object
  meshi.energy.AbstractEnergy
      meshi.energy.pairwiseNonBondedTerms.NonBondedEnergyTerm
          meshi.energy.pairwiseNonBondedTerms.excludedVol.ExcludedVol

All Implemented Interfaces:

Attributable, Updateable

public class ExcludedVol
extends NonBondedEnergyTerm

Nested Class Summary

Nested classes/interfaces inherited from class meshi.energy.AbstractEnergy

AbstractEnergy.UpdateableList

Field Summary

protected Filter	filter
protected double	Rfac

Fields inherited from class meshi.energy.pairwiseNonBondedTerms.NonBondedEnergyTerm

distanceMatrix, energyElement

Fields inherited from class meshi.energy.AbstractEnergy

comment, INFINITY, NaN, on, updateableResources, weight

Constructor Summary

ExcludedVol()

ExcludedVol(DistanceMatrix distanceMatrix, double Rfac, double weight, Filter filter, double[][] parameters)

Method Summary

double	evaluate() Evaluates energy for each distance
void	evaluateAtoms() Describe evaluateAtoms method here.

Methods inherited from class meshi.energy.pairwiseNonBondedTerms.NonBondedEnergyTerm

test

Methods inherited from class meshi.energy.AbstractEnergy

addAttribute, comment, getAttribute, handleMissingParameters, isOn, off, on, toArray, toArray, toArray, toArray, toString, update

Methods inherited from class java.lang.Object

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

Field Detail

Rfac

protected double Rfac

filter

protected Filter filter

Constructor Detail

ExcludedVol

public ExcludedVol()

ExcludedVol

public ExcludedVol(DistanceMatrix distanceMatrix,
                   double Rfac,
                   double weight,
                   Filter filter,
                   double[][] parameters)

Method Detail

evaluate

public double evaluate()

Description copied from class: NonBondedEnergyTerm

Evaluates energy for each distance

Overrides:

evaluate in class NonBondedEnergyTerm

Returns:

a sum of all energy elements

evaluateAtoms

public void evaluateAtoms()

Description copied from class: NonBondedEnergyTerm

Describe evaluateAtoms method here.

Overrides:

evaluateAtoms in class NonBondedEnergyTerm