public virtual void DoTimeStep(CellInstance cell,ComponentWorldStateBase compData, StateSnapshot state, double time, double timeStep)
{
}
public override void DoTimeStep(CellInstance cell, ComponentWorldStateBase compData, StateSnapshot state, double time, double timeStep)
{
//nothing to do there
}
public virtual void InitializeInEnvironment(CellInstance cell, ComponentWorldStateBase compData, StateSnapshot state)
{
}
public override void InitializeInEnvironment(CellInstance cell, ComponentWorldStateBase compData, StateSnapshot state)
{
cell.CellInstanceSpatialContext.Mass = mass;
cell.CellInstanceSpatialContext.Radius = radius;
}
/// <summary>
/// Execute a timestep, manipulating data accordingly
/// </summary>
/// <param name="cell">The cell to which this component belongs</param>
/// <param name="state">The current environment state</param>
/// <param name="time">Simulation time</param>
/// <param name="timeStep">Simulation time step</param>
public override void DoTimeStep(CellInstance cell, ComponentWorldStateBase compData,StateSnapshot state, double time, double timeStep)
{
FlagellaWorldState flage = (FlagellaWorldState)compData;
//NutrientField attractant = state.SimulationEnvironment.GetNutrientFieldObject(attractantIndex);
//NutrientField repellent = state.SimulationEnvironment.GetNutrientFieldObject(repellentIndex);
float valueFromCircuit = (float)cell.getLocalSimulationSpeciesAmount(getSpeciesReference(0, ComponentLinkType.Input).species.ID);
if (flage.TumbleState)
{
flage.TumbleCounter += (float)timeStep;
//end of tumble
if (flage.TumbleCounter > tumbleDuration)
{
cell.CellInstanceSpatialContext.Reorientate(new Vector3((float)(cell.GetRandomObject().NextDouble() * 2 - 1),
(float)(cell.GetRandomObject().NextDouble() * 2 - 1),
(float)(cell.GetRandomObject().NextDouble() * 2 - 1)));
flage.TumbleState = false;
//up to 50% varience in next tumble duration
flage.TumbleCounter = 0.0f + tumbleDuration*0.5f*(float)cell.GetRandomObject().NextDouble();
}
}
else
{
flage.TumbleUpdateCounter += (float)timeStep;
//Randomly decide whether or not to tumble according to some likelihood
if (flage.TumbleUpdateCounter > 1.0f / TumbleUpdateFrequency)
{
float val = flage.TumbleLikelihood - (float)cell.GetRandomObject().NextDouble();
if (flage.TumbleLikelihood - (float)cell.GetRandomObject().NextDouble() > 0)
{
//tumble
flage.TumbleState = true;
}
flage.TumbleUpdateCounter = 0.0f;
}
flage.SampleCounter += (float)timeStep;
//propel cell forward
cell.CellInstanceSpatialContext.Accelerate(new Vector3(
cell.CellInstanceSpatialContext.Orientation.x * motiveStength * (float)timeStep,
cell.CellInstanceSpatialContext.Orientation.y * motiveStength * (float)timeStep,
cell.CellInstanceSpatialContext.Orientation.z * motiveStength * (float)timeStep));
if (flage.SampleCounter > 0.4f)
{
/*
if (!flage.FirstSampleTaken)
{
//flage.FirstSample = attractant.GetNutrientLevel(cell.CellInstanceSpatialContext.Position);
flage.FirstSample = valueFromCircuit;
flage.FirstSampleTaken = true;
}*/
}
if (flage.SampleCounter > 0.8f)
{
// float SecondSample = attractant.GetNutrientLevel(cell.CellInstanceSpatialContext.Position);
/*
float SecondSample = valueFromCircuit;
if (SecondSample > flage.FirstSample)
{
//continue going straight
flage.TumbleLikelihood = 0.001f;
}
else
{
//tumble
flage.TumbleLikelihood = 0.995f;
}*/
if (valueFromCircuit > 1.0f)
{
flage.TumbleLikelihood = 0.90f;
}
else
{
flage.TumbleLikelihood = 0.1f;
}
flage.SampleCounter = 0.0f;
// flage.FirstSampleTaken = false;
}
}
}
public override void InitializeInEnvironment(CellInstance cell, ComponentWorldStateBase compData, StateSnapshot state)
{
updateOutput(cell, state);
}
public override void DoTimeStep(CellInstance cell, ComponentWorldStateBase compData, StateSnapshot state, double time, double timeStep)
{
updateOutput(cell, state);
}
/// <summary>
/// Clones the CompnentWorldStateBase object
/// </summary>
/// <returns></returns>
public virtual Object Clone()
{
ComponentWorldStateBase newInstance = new ComponentWorldStateBase(this.componentType);
return newInstance;
}