cmd-ntrf’s gists

cmd-ntrf / datalogger.py

Last active December 14, 2015 06:19

Prototype for a DataLogger object based on pandas DataFrame for the DEAP framework. This object would take care of statistics computation and bookeeping along the evolution.

	from collections import defaultdict
	from pandas import DataFrame, concat
	from sys import stdout

	from numpy import random
	from matplotlib import pyplot as plt

	class DataLogger(object):
	def __init__(self, key=None):
	self.key = key

cmd-ntrf / deap_reg_12args.py

Last active December 14, 2015 07:09

Example of a evaluation function for a trivial symbolic regression problems with 12 inputs using DEAP.

	import operator
	import numpy

	from math import sqrt

	from deap import gp


	# Our dataset is 100 random arrays of 0s and 1s
	# and the function we are trying to find is simply

cmd-ntrf / datalogger.py

Last active December 17, 2015 00:59

DEAP - Proposal for a replacement to the Statistics and EvolutionLogger objects. The Database object combine both object functionalities. It requires numpy for statistics computation.

	try:
	import numpy
	except ImportError:
	import platform
	if platform.python_implementation() == "PyPy":
	import numpypy as numpy
	else:
	raise ImportError("DEAP requires Numpy.")

	from collections import OrderedDict

cmd-ntrf / thickness.py

Created November 21, 2013 14:54

[deap-users] Set up a simulation fit

	import random

	import numpy

	from deap import base
	from deap import creator
	from deap import tools

	creator.create("Fitness", base.Fitness, weights=(1.0,))
	creator.create("Individual", numpy.ndarray, fitness=creator.Fitness)

cmd-ntrf / graph_evaluator.py

Created December 6, 2013 00:27

Example of evaluation function, see https://groups.google.com/d/topic/deap-users/iyEgrd4OHKc/discussion

	import networkx
	from metric import measure_A, measure_B, measure_C, measure_D

	def evaluate(individual):
	matrix = numpy.zeros((n,n))
	index = 0
	for i in range(n-1):
	for j in range(i+1, n):
	matrix[i,j] = matrix[j,i] = individual[index]
	index += 1

cmd-ntrf / multi-objectives_optimized_graph.py

Last active June 14, 2024 17:41

	import array
	import random

	from deap import algorithms
	from deap import base
	from deap import creator
	from deap import tools
	import networkx as nx
	import math
	import drawG

cmd-ntrf / deap_infix.py

Created March 20, 2014 20:02 — forked from soravux/deap_infix.py

	import operator
	import math
	import random
	import ctypes
	from functools import reduce

	import numpy

	from deap import algorithms
	from deap import base

cmd-ntrf / animation.py

Created September 24, 2014 14:03

Animating a dynamic random normal multivariate sampling with matplotlib example.

	import math
	import numpy

	from scipy.stats import chi2
	from matplotlib import pyplot as plt
	from matplotlib import animation
	from matplotlib.patches import Ellipse


	def cov_patch(centroid, cov, perc, alpha=0.5, color='b'):

cmd-ntrf / gsl.pyx

Created October 9, 2014 20:18

GSL wrapper to sample Sobol QRNG

	from cpython.mem cimport PyMem_Malloc, PyMem_Free

	# Declare the few types and functions we need
	cdef extern from "gsl/gsl_qrng.h":
	ctypedef struct gsl_qrng
	ctypedef struct gsl_qrng_type
	gsl_qrng_type* gsl_qrng_sobol

	gsl_qrng* gsl_qrng_alloc(gsl_qrng_type* T, unsigned int d)
	void gsl_qrng_free(gsl_qrng* q)

cmd-ntrf / merging_logbooks.py

Last active August 29, 2015 14:07

DEAP example of logbook merging

	import numpy

	from deap import tools

	logbook1 = tools.Logbook()
	logbook2 = tools.Logbook()
	logbook3 = tools.Logbook()

	# Filling the logbooks [...]

Félix-Antoine Fortin cmd-ntrf