Uses of Class
com.molecular_java.SimSpace

Uses of SimSpace in com.molecular_java

Methods in com.molecular_java with parameters of type SimSpace

Modifier and Type	Method	Description
static double	Physics.bendingPotential(SimSpace s, Ball ball1, Ball ball2, Ball ball3)	This function is used to count bending potential over three balls, assuming, that ball1 has bond to ball2 and ball2 has bond to ball3.
static double	Physics.bendingPotentialInSystem(SimSpace s, double factor, List<Ball> balls)	Method counts bending potential of the system represented by balls in a list.
static Double	Physics.boltzmannsFactor(SimSpace s)	The Boltzmann's factor is count from the temperature and the difference between potentials.
static Double	Physics.calculatePotential(SimSpace s, List<Ball> balls, int b1, int b2, Double factor)	This method calculates potential for 2 functions -- PotentialInSystem and Pressure in system.
static Double[]	Physics.centerOfMass(SimSpace s)	Computes a position of center of mass of balls in given simulation space.
void	StepVars.CountAdditionalParams(SimSpace s)	In this method some additional parameters about the simulation are count.
static Double	Physics.distanceOfTwoBalls(SimSpace s, Ball ball1, Ball ball2)	A method to count distance of two given molecules.
static Double	Physics.lennardJonesPotential(SimSpace s, Ball ball1, Ball ball2, Double distance)	Method to count "Lennard-Jones potential".
void	SimRunVars.makeAvgs(SimSpace s)	Counts the averages from the sums in the end of the simulation.
static Double	Physics.potentialInSystem(SimSpace s, double factor, List<Ball> balls)	Method counts a potential in a system represented by balls in list.
static Double	Physics.radiusOfGyration(SimSpace s)	This method counts the gyration radius of the balls in system.

Constructors in com.molecular_java with parameters of type SimSpace

Modifier	Constructor	Description
	StepVars(SimSpace s)	Standard constructor of the StepVars.