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#!/usr/bin/env python
"""Tests for optimisation functions"""
from function_optimisation import great_deluge, ga_evolve, _simple_breed,\
_simple_score, _simple_init, _simple_select
from cogent.util.unit_test import TestCase, main
from numpy import array
__author__ = "Daniel McDonald"
__copyright__ = "Copyright 2007-2012, The Cogent Project"
__contributors__ = ["Daniel McDonald"]
__license__ = "GPL"
__version__ = "1.5.3"
__maintainer__ = "Daniel McDonald"
__email__ = "mcdonadt@colorado.edu"
__status__ = "Production"
class OptimisationFunctionsTestCase(TestCase):
"""Tests for great_delue and ga_evolve"""
def test_great_deluge(self):
"""great_deluge should return expected values from foo() obj"""
class foo:
def __init__(self, x): self.x = x
def cost(self): return self.x
def perturb(self): return self.__class__(self.x - 1)
observed = [i for i in great_deluge(foo(5), max_total_iters=6)]
self.assertEqual(observed[0][1].x, 4)
self.assertEqual(observed[1][1].x, 3)
self.assertEqual(observed[2][1].x, 2)
self.assertEqual(observed[3][1].x, 1)
self.assertEqual(observed[4][1].x, 0)
self.assertEqual(observed[5][1].x, -1)
def test_ga_evolve(self):
"""ga_evolve should return expected values when using overloaded funcs"""
init_f = lambda x,y: [1,1,1]
score_f = lambda x,y: 5
breed_f = lambda w,x,y,z: [1,1,1]
select_f = lambda x,y: 2
expected = [(0, 2), (1, 2), (2, 2)]
observed = [i for i in ga_evolve(1, 2, 3, 0.5, score_f, breed_f, \
select_f, init_f, None, 3)]
self.assertEqual(observed, expected)
class PrivateFunctionsTestCase(TestCase):
"""Tests of the private support functions for ga_evolve"""
def test_simple_breed(self):
"""simple_breed should return expected values when with modded parent"""
f = lambda: 0.5
obj = lambda: 0
obj.mutate = lambda: 1
expected = [1,1,1,1,1]
observed = _simple_breed([0, obj], 5, 1.0, f)
self.assertEqual(observed, expected)
def test_simple_score(self):
"""simple_score should return choosen value with overloaded obj"""
bar = lambda: 5
bar.score = lambda x: x
self.assertEqual(_simple_score(bar,6), 6)
def test_simple_init(self):
"""simple_init should return a simple list"""
expected = [array([0]), array([0]), array([0])]
self.assertEqual(_simple_init(array([0]), 3), expected)
def test_simple_select(self):
"""simple_select should return our hand picked selection"""
pop = ['a','b','c','d','e']
scores = [5,3,8,6,1]
best_expected = (1, 'e')
self.assertEqual(_simple_select(pop, scores), best_expected)
if __name__ == '__main__':
main()
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