/**
* \brief Examines all the agents within a voxel of the agent-grid, to determine if a swimming
* agent is in contact with an agent in the biofilm
*
* <p>To determine if a swimming cell is near contact with the biofilm surface, the agent checks
* the status of the agent grid voxel it resides within. If this is 1, this is noted as having
* agents within it that are within the biofilm structure. The agent now examines how close it is
* to each of these agents. If within a certain distance (radius + stickiness constant), then the
* agent is deemed to have adhered to the structure. Any overlap will be addressed during shoving
* analysis. If not, the agent will perform another move.
*
* @author Kieran Alden
* @param gridIndex The index of the agent grid to be checked
* @param distanceSeekingAgent The distance within which two cells are deemed to be in contact
* @return Boolean noting whether the agent is in contact with an agent in the biofilm
*/
public Boolean isAgentInContactWithAgentInBiofilm(int gridIndex, double distanceSeekingAgent) {
LocatedGroup agentsInGrid = currentSimulator.agentGrid.returnGroupInVoxel(gridIndex);
Double dist = 0.0;
// Now iterate through each one. If we're close enough, move done.
// Shoving can then sort out distance between the two cells.
for (LocatedAgent aLoc : agentsInGrid.group)
dist = aLoc.getLocation().distance(swimmingAgentPosition);
if (dist <= distanceSeekingAgent) return true;
// If not, we'll do another move.
return false;
}
/**
* \brief Find a sibling of this agent
*
* <p>Find a sibling of this agent
*
* @param indexSpecies The index used to reference this species in the simulation dictionary
*/
public void findCloseSiblings(int indexSpecies) {
int nNb;
boolean test;
double shoveDist;
LocatedAgent aNb;
getPotentialShovers(getInteractDistance());
nNb = _myNeighbors.size();
for (int iNb = 0; iNb < nNb; iNb++) {
aNb = _myNeighbors.removeFirst();
// test EPS-species
test = (indexSpecies == aNb.speciesIndex);
// Test distance
shoveDist = 2 * (getShoveRadius() + aNb.getShoveRadius());
test = test && computeDifferenceVector(_location, aNb.getLocation()) <= shoveDist;
if (test & aNb != this) _myNeighbors.addLast(aNb);
}
}
