Version 1.2 (June 2013)
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agent | Package of utilities that create and manage agents in the simulation and their participation in relevant reactions |
diffusionSolver | Package of classes used to capture the diffusion solvers that can be defined in the protocol file |
multigrid | Package of classes used to aid solver calculation for multi-grid scenarios |
exceptions | Package of classes that create runtime exception objects for use when an error is encountered |
idyno | Package of classes used to launch iDynomics |
povray | Package of classes used to create output files that can be processed using POV-Ray software |
reaction | Package of classes used to model stoichiometric and kinetic reactions in iDynoMiCS |
simulator | Package of classes that create a simulator object and capture simulation time |
agent | |
zoo | Package of agents that can be included in iDynoMiCS and classes to store parameters for these agent types |
detachment | Package of classes that capture detachment of agents from the biomass |
diffusionSolver | |
multigrid | |
geometry | Package of boundary utilities that aid the creation of the environment being simulated |
boundaryConditions | Package of boundary conditions that can be used to capture agent behaviour at the boundary of the computation domain |
shape | Package of utilities that assist with managing the boundary conditions in iDynoMiCS |
reaction | |
kinetic | Package of kinetic factors that comprise the multiplicative terms that make up the reaction kinetics in iDynoMiCS |
soft_update | Package of classes required to detect whether a new release of iDynomics is available, and to perform the update |
test | Package of classes used to test methods within iDynoMiCS |
utils | Package of classes that perform utility functions in the process of running an iDynoMiCS Simulation |