skimpy.sampling.cma_es_parameter_sampler
========================================

.. py:module:: skimpy.sampling.cma_es_parameter_sampler

.. autoapi-nested-parse::

   .. module:: skimpy
      :platform: Unix, Windows
      :synopsis: Simple Kinetic Models in Python

   .. moduleauthor:: SKiMPy team

   [---------]

   Copyright 2017 Laboratory of Computational Systems Biotechnology (LCSB),
   Ecole Polytechnique Federale de Lausanne (EPFL), Switzerland

   Licensed under the Apache License, Version 2.0 (the "License");
   you may not use this file except in compliance with the License.
   You may obtain a copy of the License at

   http://www.apache.org/licenses/LICENSE-2.0

   Unless required by applicable law or agreed to in writing, software
   distributed under the License is distributed on an "AS IS" BASIS,
   WITHOUT WARRANTIE CONDITIONS OF ANY KIND, either express or implied.
   See the License for the specific language governing permissions and
   limitations under the License.



Classes
-------

.. autoapisummary::

   skimpy.sampling.cma_es_parameter_sampler.CMAESParameterSampler


Functions
---------

.. autoapisummary::

   skimpy.sampling.cma_es_parameter_sampler.run_ea
   skimpy.sampling.cma_es_parameter_sampler.init_parameters
   skimpy.sampling.cma_es_parameter_sampler.pareto_dominance


Module Contents
---------------

.. py:class:: CMAESParameterSampler(parameters=None)

   Bases: :py:obj:`skimpy.sampling.ParameterSampler`


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


   .. py:class:: Parameters

      Bases: :py:obj:`tuple`


      Parameter type specified for the parameters samples
      :return:


      .. py:attribute:: n_samples



   .. py:method:: 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)

      :param compiled_model:
      :param flux_dict:
      :param concentration_dict:
      :param seed:
      :param max_generation:
      :param mutation_probability:
      :param eta:
      :return:



   .. py:method:: _compile_sampling_functions(model, concentrations, fluxes)

      Compliles the function for sampling using theano
      :param model:



   .. py:method:: fitness(parameters)


   .. py:method:: update_parameters(parameters)


.. py:function:: run_ea(toolbox, ngen=None, stats=None, hof=None, verbose=False)

.. py:function:: init_parameters(low, up)

.. py:function:: pareto_dominance(x, y)