neurord.numeric.grid

Class SteppedStochasticGridCalc

java.lang.Object

neurord.numeric.BaseCalc

neurord.numeric.grid.GridCalc

neurord.numeric.grid.StochasticGridCalc

neurord.numeric.grid.SteppedStochasticGridCalc

All Implemented Interfaces:

Runnable, IGridCalc

public class SteppedStochasticGridCalc
extends StochasticGridCalc

Nested Class Summary

Nested classes/interfaces inherited from class neurord.numeric.BaseCalc

BaseCalc.algorithm_t, BaseCalc.distribution_t, BaseCalc.output_t

Nested classes/interfaces inherited from interface neurord.numeric.grid.IGridCalc

IGridCalc.Event, IGridCalc.EventType, IGridCalc.Happening, IGridCalc.HappeningKind

Field Summary

Fields

Modifier and Type	Field and Description
static int	SHARED_DIFF_PARTICLES

Fields inherited from class neurord.numeric.grid.GridCalc

eltregions, nel, nspec, species

Fields inherited from class neurord.numeric.BaseCalc

algoID, distID, LN_PARTICLES_PUVC, NM_PER_PARTICLE_PUV, PARTICLES_PUASD, PARTICLES_PUVC, results, resultWriters, sdRun, writeConcentration

Constructor Summary

Constructors

Constructor and Description
SteppedStochasticGridCalc(int trial, SDRun sdm)

Method Summary

Modifier and Type	Method and Description
double	advance(double tnow, double tend)
static Object[]	calculatePropensity(int[] ri, int[] pi, int[] rs, int[] ps, int[] rp, double lnrate, double lnvol, int[] nstart)
protected long	eventCount()
void	footer()
Collection<IGridCalc.Event>	getEvents()
int[][]	getEventStatistics()
Collection<IGridCalc.Happening>	getHappenings()
void	init()
protected void	reactionStep(int[] nstart, int[] nend, int iel, int ireac)
protected void	resetEventStatistics()

Methods inherited from class neurord.numeric.grid.StochasticGridCalc

getGridPartConc, getGridPartNumb, initPopulation, preferConcs

Methods inherited from class neurord.numeric.grid.GridCalc

_run, endtime, getNumberElements, getParticleCount, intlog

Methods inherited from class neurord.numeric.BaseCalc

addResultWriter, close, getSimulationSeed, getSource, run, storeResultIn, trial

Methods inherited from class java.lang.Object

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

Methods inherited from interface neurord.numeric.grid.IGridCalc

getSimulationSeed, getSource, trial

Field Detail

SHARED_DIFF_PARTICLES

public static final int SHARED_DIFF_PARTICLES

See Also:

Constant Field Values

Constructor Detail

SteppedStochasticGridCalc

public SteppedStochasticGridCalc(int trial,
                                 SDRun sdm)

Method Detail

init

public final void init()

Overrides:

init in class StochasticGridCalc

advance

public double advance(double tnow,
                      double tend)

Specified by:

advance in class GridCalc

footer

public void footer()

Overrides:

footer in class StochasticGridCalc

eventCount

protected long eventCount()

Specified by:

eventCount in class GridCalc

reactionStep

protected void reactionStep(int[] nstart,
                            int[] nend,
                            int iel,
                            int ireac)

calculatePropensity

public static Object[] calculatePropensity(int[] ri,
                                           int[] pi,
                                           int[] rs,
                                           int[] ps,
                                           int[] rp,
                                           double lnrate,
                                           double lnvol,
                                           int[] nstart)

getEventStatistics

public int[][] getEventStatistics()

resetEventStatistics

protected void resetEventStatistics()

Specified by:

resetEventStatistics in class GridCalc

getEvents

public Collection<IGridCalc.Event> getEvents()

getHappenings

public Collection<IGridCalc.Happening> getHappenings()