Create agents in 3D space

Author: Lukas Breitwieser
In this tutorial we want to demonstrate different functions to initialize agents in space.

Let's start by setting up BioDynaMo notebooks.

%jsroot on
gROOT->LoadMacro("${BDMSYS}/etc/rootlogon.C");

INFO: Created simulation object 'simulation' with UniqueName='simulation'.

We use SphericalAgents with $diameter = 10$ for all consecutive examples.

auto create_agent = [](const Real3& position) {
  auto* agent = new SphericalAgent(position);
  agent->SetDiameter(10);
  return agent;
};

We define the number of agents that should be created for functions that require this parameter.

uint64_t num_agents = 300;

We define two helper functions that reset the simulation to the empty state and one to visualize the result.

void Clear() {
  simulation.GetResourceManager()->ClearAgents();
}

void Vis() {
  simulation.GetScheduler()->FinalizeInitialization();
  VisualizeInNotebook();
}

Create agents randomly inside a 3D cube

Cube: $x_{min} = y_{min} = z_{min} = -200$ and $x_{max} = y_{max} = z_{max} = 200$
By default a uniform random number distribution is used.

Clear();
ModelInitializer::CreateAgentsRandom(-200, 200, num_agents, create_agent);
Vis();