8.1.1.6.1.1. skimpy.sampling.cma_es_parameter_sampler

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8.1.1.6.1.1.1. Classes

CMAESParameterSampler

A simple parameter sampler that samples stable model parameters

8.1.1.6.1.1.2. Functions

run_ea(toolbox[, ngen, stats, hof, verbose])

init_parameters(low, up)

pareto_dominance(x, y)

8.1.1.6.1.1.3. Module Contents

class skimpy.CMAESParameterSampler(parameters=None)

Bases: skimpy.sampling.ParameterSampler

A simple parameter sampler that samples stable model parameters with respect to a steady state flux and concentration state

class Parameters

Bases: tuple

Parameter type specified for the parameters samples :return:

n_samples
sample(compiled_model, flux_dict, concentration_dict, seed=123, max_generation=10, sigma=0.1, lambda_=1000, nhof=100, max_eigenvalue=0, min_km=0.001, max_km=1000.0)
Parameters:

  • compiled_model

  • flux_dict

  • concentration_dict

  • seed

  • max_generation

  • mutation_probability

  • eta

Returns:

_compile_sampling_functions(model, concentrations, fluxes)

Compliles the function for sampling using theano :param model:

fitness(parameters)
update_parameters(parameters)
skimpy.run_ea(toolbox, ngen=None, stats=None, hof=None, verbose=False)
skimpy.init_parameters(low, up)
skimpy.pareto_dominance(x, y)