Package etomica.modules.chainequilibrium

Class ColorSchemeRadical

java.lang.Object

etomica.graphics.ColorScheme

etomica.graphics.ColorSchemeByType

etomica.modules.chainequilibrium.ColorSchemeRadical

All Implemented Interfaces:

AtomLeafAgentManager.AgentSource<ColorSchemeRadical.LengthAgent>, ColorSchemeCollective

public class ColorSchemeRadical
extends ColorSchemeByType
implements ColorSchemeCollective, AtomLeafAgentManager.AgentSource<ColorSchemeRadical.LengthAgent>

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	ColorSchemeRadical.LengthAgent

Nested classes/interfaces inherited from class etomica.graphics.ColorScheme

ColorScheme.Simple

Field Summary

Fields

Modifier and Type	Field	Description
protected AtomLeafAgentManager<IAtom[]>	agentManager
protected Box	box
protected AtomLeafAgentManager<ColorSchemeRadical.LengthAgent>	chainLengthManager
protected java.util.Map<AtomType,java.awt.Color>	fullColorMap
protected java.awt.Color[]	greys
protected java.util.Map<AtomType,java.awt.Color>	radicalColorMap

Fields inherited from class etomica.graphics.ColorScheme

DEFAULT_ATOM_COLOR, defaultColor

Fields inherited from class etomica.graphics.ColorSchemeByType

defaultColorsUsed, moreDefaultColors

Constructor Summary

Constructors

Constructor	Description
ColorSchemeRadical(AtomLeafAgentManager<IAtom[]> agentManager)

Method Summary

Modifier and Type	Method	Description
void	colorAllAtoms()	Determine color of all atoms.
java.awt.Color	getAtomColor(IAtom atom)
Box	getBox()
ColorSchemeRadical.LengthAgent	makeAgent(IAtom a, Box agentBox)	Returns an agent for the given Atom.
protected void	recursiveTag(IAtom a, int chainNumber)
void	releaseAgent(ColorSchemeRadical.LengthAgent agent, IAtom atom, Box agentBox)	This informs the agent source that the agent is going away and that the agent source should disconnect the agent from other elements.
void	setBox(Box box)
void	setFreeRadicalColor(AtomType type, java.awt.Color color)
void	setFullColor(AtomType type, java.awt.Color color)

Methods inherited from class etomica.graphics.ColorScheme

getDefaultColor, main, setDefaultColor

Methods inherited from class etomica.graphics.ColorSchemeByType

getColor, setColor

Methods inherited from class java.lang.Object

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

Field Detail

agentManager

protected final AtomLeafAgentManager<IAtom[]> agentManager

radicalColorMap

protected final java.util.Map<AtomType,java.awt.Color> radicalColorMap

fullColorMap

protected final java.util.Map<AtomType,java.awt.Color> fullColorMap

greys

protected final java.awt.Color[] greys

box

protected Box box

chainLengthManager

protected AtomLeafAgentManager<ColorSchemeRadical.LengthAgent> chainLengthManager

Constructor Detail

ColorSchemeRadical

public ColorSchemeRadical(AtomLeafAgentManager<IAtom[]> agentManager)

Method Detail

getAtomColor

public java.awt.Color getAtomColor(IAtom atom)

Overrides:

getAtomColor in class ColorSchemeByType

setFreeRadicalColor

public void setFreeRadicalColor(AtomType type,
                                java.awt.Color color)

setFullColor

public void setFullColor(AtomType type,
                         java.awt.Color color)

makeAgent

public ColorSchemeRadical.LengthAgent makeAgent(IAtom a,
                                                Box agentBox)

Description copied from interface: AtomLeafAgentManager.AgentSource

Returns an agent for the given Atom. The agentBox is provided for convenience for agent sources that handle multiple boxes.

Specified by:

makeAgent in interface AtomLeafAgentManager.AgentSource<ColorSchemeRadical.LengthAgent>

agentBox - TODO

releaseAgent

public void releaseAgent(ColorSchemeRadical.LengthAgent agent,
                         IAtom atom,
                         Box agentBox)

Description copied from interface: AtomLeafAgentManager.AgentSource

This informs the agent source that the agent is going away and that the agent source should disconnect the agent from other elements. The agentBox is provided for convenience for agent sources that handle multiple boxes.

Specified by:

releaseAgent in interface AtomLeafAgentManager.AgentSource<ColorSchemeRadical.LengthAgent>

colorAllAtoms

public void colorAllAtoms()

Description copied from interface: ColorSchemeCollective

Determine color of all atoms. Color is not re-determined when getAtomColor is called.

Specified by:

colorAllAtoms in interface ColorSchemeCollective

recursiveTag

protected void recursiveTag(IAtom a,
                            int chainNumber)

getBox

public Box getBox()

setBox

public void setBox(Box box)