- a -

• acquire() : RadialDistributionFunction, RadialDensityHistogram, PotentialEnergyHistogram, KineticEnergyHistogram, BaseHistogram
• addAtom() : Cluster
• addHeaderKeyValuePair() : ConfigurationDatabase
• addKeyValuePair() : ConfigurationDatabase
• addMenuItem() : Menu
• adjustPosCenMass() : MDLJ_Simulation, FCC_Lattice
• Atom() : Atom

- b -

• BaseHistogram() : BaseHistogram
• BaseSimulation() : BaseSimulation

- c -

• calculateAccelerations() : MDLJ_Simulation
• calculateCentreMass() : Cluster
• calculateKineticEnergy() : Cluster
• calculatePositions() : MDLJ_Simulation
• calculatePotentialEnergy() : Cluster
• calculateVelocities() : MDLJ_Simulation
• changeInStep() : BaseSimulation
• clear() : MD_Simulation, MDLJ_Simulation, BaseSimulation, BaseHistogram, Cluster
• Cluster() : Cluster
• ConfigurationDatabase() : ConfigurationDatabase
• Coordinate() : Coordinate
• createLattice() : FCC_Lattice

- d -

• doubleValue() : ConfigurationDatabase
• draw() : Menu

- f -

• FCC_Lattice() : FCC_Lattice
• findLastStep() : MDLJ_Simulation, MCLJ_Simulation, BaseSimulation

- g -

• generateDistanceToMove() : MCLJ_Simulation

- h -

• headers() : ConfigurationDatabase
• histogramBins() : BaseHistogram

- i -

• intValue() : ConfigurationDatabase
• isAcceptableMove() : MCLJ_Simulation

- k -

• keys() : ConfigurationDatabase
• KineticEnergyHistogram() : KineticEnergyHistogram
• kineticEnergyTotal() : Cluster

- m -

• MC_Simulation() : MC_Simulation
• MCLJ_Simulation() : MCLJ_Simulation
• MD_Simulation() : MD_Simulation
• MDLJ_Simulation() : MDLJ_Simulation
• Menu() : Menu
• menuItem() : Menu

- o -

• operator *() : Coordinate
• operator *=() : Coordinate
• operator!=() : Coordinate, Atom
• operator+() : Coordinate
• operator+=() : Coordinate
• operator-() : Coordinate
• operator-=() : Coordinate
• operator/() : Coordinate
• operator/=() : Coordinate
• operator=() : Coordinate, Cluster, Atom
• operator==() : Coordinate, Cluster, Atom
• operator[]() : Cluster

- p -

• positionCentreMass() : Cluster
• potentialEnergyDifference() : MCLJ_Simulation
• PotentialEnergyHistogram() : PotentialEnergyHistogram
• potentialEnergyTotal() : Cluster
• printInterval() : BaseSimulation
• pullingInterval() : BaseHistogram

- r -

• RadialDensityHistogram() : RadialDensityHistogram
• RadialDistributionFunction() : RadialDistributionFunction
• read() : Cluster
• reducedKineticEnergy() : MDLJ_Simulation
• reducedPotentialEnergy() : MDLJ_Simulation
• reducedTotalEnergy() : MDLJ_Simulation
• run() : MDLJ_Simulation, MCLJ_Simulation, BaseSimulation
• runSteps() : BaseSimulation

- s -

• selectMenuItem() : Menu
• setChangeInStep() : BaseSimulation
• setFeedback() : Menu
• setKineticEnergyTotal() : Cluster
• setPositionCentreMass() : Cluster
• setPotentialEnergyTotal() : Cluster
• setPrintInterval() : BaseSimulation
• setPullingInterval() : BaseHistogram
• setRunSteps() : BaseSimulation
• setTemperature() : MC_Simulation
• setVelocityCentreMass() : Cluster
• size() : Cluster
• stringValue() : ConfigurationDatabase

- t -

• temperature() : MC_Simulation

- v -

• velocityCentreMass() : Cluster

- w -

• write() : RadialDistributionFunction, RadialDensityHistogram, PotentialEnergyHistogram, KineticEnergyHistogram, BaseHistogram, Cluster
• writeAverages() : MD_Simulation, MC_Simulation

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