Reaction-diffusion simulation script

class strengths.RDScript(system, t_sample, time_step=0.001, t_max='default', sampling_policy='on_t_sample', sampling_interval=1, rng_seed=None, units_system=<strengths.units.UnitsSystem object>)

Class that gather simulation parameters. Each argument sets the property with the same name. Default values are :

• time_step : 1e-3,

• t_max : “default”,

• sampling_policy : “on_t_sample”,

• sampling_interval : 1,

• rng_seed : None,

• units_system : UnitsSystem()

copy()

Returns a deep copy of the object.

property rng_seed

Seed to be used for the engine’s pseudo random number generator, if any.

property sampling_interval

In-simulation time interval at which the system state should be sampled, if the sampling policy is “on_interval”.

property sampling_policy

String specifying how sampling should be handled by the simulation engine. accepted sampling policies are :

• “on_t_sample” : (default) sampling is done accorging to t_sample (as close as possible).

• “on_iteration” : sampling is done at t=0, then at every iteration.

• “on_interval” : sampling is done at t=0, then at the given time interval.

• “no_sampling” : no sampling is managed by the engine. the sample() method should be used for manual sampling.

property system

reaction diffusion system of which the time trajectory should be simulated.

property t_max

Time at which the simulation should stop. if set to “default”, t_max will be the last element of t_sample.

property t_sample

Expected sampling times (used if sampling_policy==”on_t_sample”).

property time_step

Time step to be used, if necessary.

property units_system

Default units system to be used for numerical inputs. This is also the units system in which the system trajectory (sampled states and times) will be expressed.

strengths.rdscript_from_dict(d, base_path=None)

Creates a RDScript object from a dictionary.

strengths.rdscript_to_dict(script)

Creates a dictionary from a RDScript object.

strengths.load_rdscript(path)

Loads a RDScript object from a JSON file.

strengths.save_rdscript(script)

Saves a RDScript object as a JSON file.