Here is a list of all documented files with brief descriptions:

[detail level 12]

PDController
Calculations.java	Provides functions for calculating the outputs
Constants.java	Provides the structure for holding constant values
Control.java	Controls the flow of the program
InputParameters.java	Provides the function for reading inputs and the function for checking the physical constraints on the input
ODE.java	Class representing an ODE system
ODEStepHandler.java	Class defining additional behaviour for each step of an ODE solution
OutputFormat.java	Provides the function for writing outputs