SelfAssemblySim

java.lang.Object
- etomica.simulation.Simulation
- - etomica.modules.selfassembly.SelfAssemblySim

public class SelfAssemblySim
extends Simulation

Field Summary

Fields
Modifier and Type	Field	Description
`ActivityIntegrate`	`activityIntegrate`
`AtomLeafAgentManager<IAtom[]>`	`agentManager`
`Box`	`box`
`ConfigurationLatticeRandom`	`config`
`java.awt.Component`	`display`
`IntegratorHard`	`integratorHard`
`int`	`nA`
`int`	`nB`
`int`	`nB1`
`int`	`nB2`
`P2SquareWell`	`p2AA`
`P2SquareWell`	`p2AB1`
`P2SquareWell`	`p2AB2`
`P2SquareWell`	`p2B1B1`
`P2SquareWell`	`p2B1B2`
`P2SquareWell`	`p2B2B2`
`P2Tether`	`p2Bond`
`PotentialMasterList`	`potentialMaster`
`SpeciesGeneral`	`speciesA`
`SpeciesGeneralMutable`	`speciesB`
`MeterTemperature`	`thermometer`
`AtomType`	`typeA`
`AtomType`	`typeB1`
`AtomType`	`typeB2`

Fields inherited from class etomica.simulation.Simulation
eventManager, random, seeds, space

Constructor Summary

Constructors
Constructor Description

SelfAssemblySim(Space space)

Constructors
Constructor	Description
`SelfAssemblySim(Space space)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`int`	`getNA()`
`int`	`getNB()`
`int`	`getNB1()`
`int`	`getNB2()`
`AtomType`	`getTypeA()`
`AtomType`	`getTypeB1()`
`AtomType`	`getTypeB2()`
`SpeciesGeneral`	`makeSpeciesB(int nB1, int nB2)`
`void`	`setNA(int nA)`
`void`	`setNB(int nB)`
`void`	`setNB1(int nB1)`
`void`	`setNB2(int nB2)`

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

Methods inherited from class etomica.simulation.Simulation
addBox, addSpecies, box, getBox, getBoxCount, getBoxes, getController, getEventManager, getIntegrator, getRandom, getRandomSeeds, getSpace, getSpecies, getSpeciesCount, getSpeciesList, makeBox, makeBox, makeUniqueElementSymbol, removeBox, setRandom, species

Field Detail

potentialMaster

public final PotentialMasterList potentialMaster

config

public final ConfigurationLatticeRandom config

integratorHard
```
public IntegratorHard integratorHard
```

display
```
public java.awt.Component display
```

box
```
public Box box
```

thermometer
```
public MeterTemperature thermometer
```

speciesA
```
public SpeciesGeneral speciesA
```

speciesB
```
public SpeciesGeneralMutable speciesB
```

p2AA
```
public final P2SquareWell p2AA
```

p2AB1
```
public final P2SquareWell p2AB1
```

p2AB2
```
public final P2SquareWell p2AB2
```

p2B1B1
```
public final P2SquareWell p2B1B1
```

p2B1B2
```
public final P2SquareWell p2B1B2
```

p2B2B2
```
public final P2SquareWell p2B2B2
```

p2Bond
```
public final P2Tether p2Bond
```

activityIntegrate

public ActivityIntegrate activityIntegrate

agentManager

public AtomLeafAgentManager<IAtom[]> agentManager

nA
```
public int nA
```

nB
```
public int nB
```

nB1
```
public int nB1
```

nB2
```
public int nB2
```

typeB1
```
public final AtomType typeB1
```

typeB2
```
public final AtomType typeB2
```

typeA
```
public final AtomType typeA
```

Constructor Detail

SelfAssemblySim

public SelfAssemblySim(Space space)

Method Detail

getNA
```
public int getNA()
```

setNA
```
public void setNA(int nA)
```

getNB
```
public int getNB()
```

setNB
```
public void setNB(int nB)
```

setNB1
```
public void setNB1(int nB1)
```

getNB1
```
public int getNB1()
```

setNB2
```
public void setNB2(int nB2)
```

getNB2
```
public int getNB2()
```

getTypeA
```
public AtomType getTypeA()
```

getTypeB1
```
public AtomType getTypeB1()
```

getTypeB2
```
public AtomType getTypeB2()
```

makeSpeciesB

public SpeciesGeneral makeSpeciesB(int nB1,
                                   int nB2)

Class SelfAssemblySim

Field Summary

Fields inherited from class etomica.simulation.Simulation

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Methods inherited from class etomica.simulation.Simulation

Field Detail

potentialMaster

config

integratorHard

display

box

thermometer

speciesA

speciesB

p2AA

p2AB1

p2AB2

p2B1B1

p2B1B2

p2B2B2

p2Bond

activityIntegrate

agentManager

nA

nB

nB1

nB2

typeB1

typeB2

typeA

Constructor Detail

SelfAssemblySim

Method Detail

getNA

setNA

getNB

setNB

setNB1

getNB1

setNB2

getNB2

getTypeA

getTypeB1

getTypeB2

makeSpeciesB