def setUp(self):
self.r = [4, 4]
self.hv2d_eq_0 = hypervolume([[3, 1], [2, 2], [1, 3]]) # LC in [0,1,2]
self.hv2d_eq_1 = hypervolume([[2.5, 1], [2, 2], [1, 3]]) # LC = 1
self.hv2d_0 = hypervolume([[3.5, 1], [2, 2], [1, 3]])
self.hv2d_1 = hypervolume([[3, 1], [2.5, 2.5], [1, 3]])
self.hv2d_2 = hypervolume([[3, 1], [2, 2], [1, 3.5]])
def setUp(self):
self.r = [4, 4]
self.hv2d_eq_0 = hypervolume([[3, 1], [2, 2], [1, 3]]) # LC in [0,1,2]
self.hv2d_eq_1 = hypervolume([[2.5, 1], [2, 2], [1, 3]]) # LC = 1
self.hv2d_0 = hypervolume([[3.5, 1], [2, 2], [1, 3]])
self.hv2d_1 = hypervolume([[3, 1], [2.5, 2.5], [1, 3]])
self.hv2d_2 = hypervolume([[3, 1], [2, 2], [1, 3.5]])
def test4d_duplicate(self):
hv = hypervolume([[1, 1, 1, 1], [1, 1, 1, 1]])
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.hv4d()), 1)
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.fpl()), 1)
# Duplicate and dominated
hv = hypervolume([[1, 1, 1, 1], [1, 1, 1, 1], [0, 0, 0, 0]])
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.hv4d()), 16)
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.fpl()), 16)
def test4d_duplicate(self):
hv = hypervolume([[1, 1, 1, 1], [1, 1, 1, 1]])
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.hv4d()), 1)
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.fpl()), 1)
# Duplicate and dominated
hv = hypervolume([[1, 1, 1, 1], [1, 1, 1, 1], [0, 0, 0, 0]])
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.hv4d()), 16)
self.assertEqual(
hv.compute(r=(2, 2, 2, 2), algorithm=hv_algorithm.fpl()), 16)
def test3d_extreme(self):
"""
Combine extreme points together.
Mixing small and large contributions in a single front
"""
# Reset the set S.
# 3 duplicate points
R = (0, 0, 0)
S = ((-1, -1, -1), ) * 3
self.assertContribs(S, R, (0, ) * 3)
# Adding a point far away
S += ((-1000, ) * 3, )
self.assertContribs(S, R, (0, 0, 0, 999999999))
# Adding an even further point
S += ((-10000, ) * 3, )
self.assertContribs(S, R, (0, 0, 0, 0, 999000000000))
# Tiny box on top of a large one
S = ((-1000.001, -0.001, -0.001), (-1000, -1000, -1000))
R = (0, 0, 0)
hv = hypervolume(S)
ans = (0.000000001, 999999999.999)
c = list(hv.contributions(R))
# Round contribution to 9th decimal place as the double type is loosing
# the exact accuracy
c[0] = round(c[0], 9)
self.assertEqual(tuple(c), ans)
def get_hypervolume(self, reference=None):
if reference is None:
reference = [1000.0] * len(self.funs)
hv = hypervolume(self.pop)
return hv.compute(r=reference)
def test3d_extreme(self):
"""
Combine extreme points together.
Mixing small and large contributions in a single front
"""
# Reset the set S.
# 3 duplicate points
R = (0, 0, 0)
S = ((-1, -1, -1),) * 3
self.assertContribs(S, R, (0,) * 3)
# Adding a point far away
S += ((-1000,) * 3,)
self.assertContribs(S, R, (0, 0, 0, 999999999))
# Adding an even further point
S += ((-10000,) * 3,)
self.assertContribs(S, R, (0, 0, 0, 0, 999000000000))
# Tiny box on top of a large one
S = ((-1000.001, -0.001, -0.001), (-1000, -1000, -1000))
R = (0, 0, 0)
hv = hypervolume(S)
ans = (0.000000001, 999999999.999)
c = list(hv.contributions(R))
# Round contribution to 9th decimal place as the double type is loosing
# the exact accuracy
c[0] = round(c[0], 9)
self.assertEqual(tuple(c), ans)
def test_correct_out(self):
# simple 3D test
hv = hypervolume([[1, 1, 1], [2, 2, 2, ]])
self.assertEqual(hv.compute(r=[3, 3, 3]), 8)
# simple 2D test
hv = hypervolume([[1, 2], [2, 1]])
self.assertEqual(hv.compute(r=[3, 3]), 3)
# point on the border of refpoint (2D)
hv = hypervolume([[1, 2], [2, 1]])
self.assertEqual(hv.compute([2, 2]), 0)
# points on the border of refpoint (3D)
hv = hypervolume([[1, 2, 1], [2, 1, 1]])
self.assertEqual(hv.compute([2, 2, 2]), 0)
def test_gettersetter(self):
hv = hypervolume([[1, 2, 3], [4, 5, 6]])
self.assertTrue(hv.get_verify())
self.assertTrue(hv.get_copy_points())
hv.set_verify(False)
hv.set_copy_points(False)
self.assertTrue(hv.get_verify() is False)
self.assertTrue(hv.get_copy_points() is False)
def test_tuple_ctor(self):
# test that hypervolume can be computed using a tuple as well
hv = hypervolume(((1, 1, 1), (
2,
2,
2,
)))
self.assertEqual(hv.compute(r=(3, 3, 3)), 8)
def test_gettersetter(self):
hv = hypervolume([[1, 2, 3], [4, 5, 6]])
self.assertTrue(hv.get_verify())
self.assertTrue(hv.get_copy_points())
hv.set_verify(False)
hv.set_copy_points(False)
self.assertTrue(hv.get_verify() is False)
self.assertTrue(hv.get_copy_points() is False)
def test_hv4d(self):
hv3d = hypervolume(self.ps3d_0)
hv4d = hypervolume(self.ps4d_0)
self.assertEqual(
1.0, hv4d.compute(self.r4d_0, algorithm=hv_algorithm.hv4d()))
self.assertRaises(ValueError,
hv3d.compute,
r=self.r3d_0,
algorithm=hv_algorithm.hv4d())
self.assertRaises(ValueError,
hv3d.compute,
r=self.r4d_0,
algorithm=hv_algorithm.hv4d())
self.assertRaises(ValueError,
hv4d.compute,
r=self.r3d_0,
algorithm=hv_algorithm.hv4d())
def assertContribs(self, S, R, ans):
"""
This method is an assertion that given hypervolume problem constructed from S, with a reference point R
Returns a valid answer to the "contributions" feature both for the contributions method and the explicit call
for the exclusive hypervolume as well.
"""
hv = hypervolume(S)
self.assertEqual(hv.contributions(R), ans)
self.assertEqual(tuple(hv.exclusive(i, R) for i in range(len(S))), ans)
def assertContribs(self, S, R, ans):
"""
This method is an assertion that given hypervolume problem constructed from S, with a reference point R
Returns a valid answer to the "contributions" feature both for the contributions method and the explicit call
for the exclusive hypervolume as well.
"""
hv = hypervolume(S)
self.assertEqual(hv.contributions(R), ans)
self.assertEqual(tuple(hv.exclusive(i, R) for i in range(len(S))), ans)
def test_refpoint_not_dom(self):
# refpoint must be at least weakly dominated by every point (assuming
# minimization problem)
hv = hypervolume([[1, 3], [2, 2], [3, 1]])
# equal to some other point
self.assertRaises(ValueError, hv.compute, [3, 1])
# refpoint dominating some points
self.assertRaises(ValueError, hv.compute, [1.5, 1.5])
# refpoint dominating all points
self.assertRaises(ValueError, hv.compute, [0, 0])
def test_refpoint_not_dom(self):
# refpoint must be at least weakly dominated by every point (assuming
# minimization problem)
hv = hypervolume([[1, 3], [2, 2], [3, 1]])
# equal to some other point
self.assertRaises(ValueError, hv.compute, [3, 1])
# refpoint dominating some points
self.assertRaises(ValueError, hv.compute, [1.5, 1.5])
# refpoint dominating all points
self.assertRaises(ValueError, hv.compute, [0, 0])
def test_correct_out(self):
# simple 3D test
hv = hypervolume([[1, 1, 1], [
2,
2,
2,
]])
self.assertEqual(hv.compute(r=[3, 3, 3]), 8)
# simple 2D test
hv = hypervolume([[1, 2], [2, 1]])
self.assertEqual(hv.compute(r=[3, 3]), 3)
# point on the border of refpoint (2D)
hv = hypervolume([[1, 2], [2, 1]])
self.assertEqual(hv.compute([2, 2]), 0)
# points on the border of refpoint (3D)
hv = hypervolume([[1, 2, 1], [2, 1, 1]])
self.assertEqual(hv.compute([2, 2, 2]), 0)
def hvContribution(Pop, Zmin, a):
hvCont = np.zeros(Pop.NPop)
indND = np.where(Pop.rank == 1)[0]
NDobj = Pop.obj[indND] * a + Zmin
ref = NDobj.max(axis=0) * 1.1
hv = hypervolume(NDobj.tolist())
for i in np.arange(len(indND)):
hvCont[indND[i]] = hv.exclusive(i, ref.tolist())
Pop.hvCont = hvCont
def test_hv4d(self):
hv3d = hypervolume(self.ps3d_0)
hv4d = hypervolume(self.ps4d_0)
self.assertEqual(
1.0, hv4d.compute(self.r4d_0, algorithm=hv_algorithm.hv4d()))
self.assertRaises(
ValueError,
hv3d.compute,
r=self.r3d_0,
algorithm=hv_algorithm.hv4d())
self.assertRaises(
ValueError,
hv3d.compute,
r=self.r4d_0,
algorithm=hv_algorithm.hv4d())
self.assertRaises(
ValueError,
hv4d.compute,
r=self.r3d_0,
algorithm=hv_algorithm.hv4d())
def test_pop_ctor(self):
# constructs the hypervolume object from a population object, expects
# to not raise any error
prob = problem.zdt(2)
pop = population(prob, 100)
# construction from a population object
hypervolume(pop)
# setting verification flag to False
hypervolume(pop, False)
# setting verification flag to True
hypervolume(pop, True)
def test_pop_ctor(self):
# constructs the hypervolume object from a population object, expects
# to not raise any error
prob = problem.zdt(2)
pop = population(prob, 100)
# construction from a population object
hypervolume(pop)
# setting verification flag to False
hypervolume(pop, False)
# setting verification flag to True
hypervolume(pop, True)
def setUp(self):
self.r = [4, 4]
# all are equal (take first -> idx = 0)
self.hv2d = hypervolume([[3, 1], [2, 2], [1, 3]])
# all are equal (take first -> idx = 0)
self.hv2d_2 = hypervolume([[3.1, 1], [2, 2], [1, 3]])
def test4d_dominated(self):
hv = hypervolume([[1, 1, 1, 1], [2, 2, 2, 2]])
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.hv4d()), 16)
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.fpl()), 16)
def test4d_edge(self):
hv = hypervolume([[1, 1, 1, 3], [2, 2, 2, 3]])
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.hv4d()), 0)
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.fpl()), 0)
def setUp(self):
self.r = [4, 4]
# all are equal (take first -> idx = 0)
self.hv2d = hypervolume([[3, 1], [2, 2], [1, 3]])
# all are equal (take first -> idx = 0)
self.hv2d_2 = hypervolume([[3.1, 1], [2, 2], [1, 3]])
def test_tuple_ctor(self):
# test that hypervolume can be computed using a tuple as well
hv = hypervolume(((1, 1, 1), (2, 2, 2,)))
self.assertEqual(hv.compute(r=(3, 3, 3)), 8)
def setUp(self):
self.hv2d = hypervolume([[3, 1], [2, 2], [1, 3]])
def test4d_edge(self):
hv = hypervolume([[1, 1, 1, 3], [2, 2, 2, 3]])
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.hv4d()), 0)
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.fpl()), 0)
def compute_hypervolume(self, pop):
if pop.champion.f[0] == self._UNFEASIBLE:
raise Exception('Input population contains only unfeasible individuals')
hv = hypervolume(pop)
return (hv.compute(self._compute_ref_point()) * DAY2SEC / AU)
#
# alg = algorithm.nsga_II(gen = 100, cr = 0.95, eta_c = 10, m = 0.01, eta_m = 50)
# pop = population(prob, pop_size) #Genero poblacion inicial aleatoria del problema ZDT
# pop2 = population(prob, pop_size)
valores_pdistance=[]
valores_hv=[]
for i in range(rep):
pop = population(prob, pop_size) #Genero poblacion inicial aleatoria del problema ZDT
pop = alg.evolve(pop) #Poblacion final al ejecutar el algoritmo
# pop3 = alg3.evolve(pop3)
pop=eliminar_dominadas(pop) #Dejo solo las soluciones no dominadas de la poblacion final
pop.plot_pareto_fronts() #Pinto las soluciones en el grafic
# pop3.plot_pareto_fronts()
valores_pdistance=valores_pdistance+[prob.p_distance(pop)] #Obtengo de la poblacion no dominada
hv= hypervolume(pop) #Obtengo de la poblacion no dominada el hipervolumen
ref_point = hv.get_nadir_point(0.1)
valores_hv=valores_hv+[hv.compute(r=ref_point)] #Computo el hipervolumen especificando la referencia
#Obtengo la media y desviacion tipica de la distancia generacional y el hipervolumen
print 'mean p-distance SPEA'
print numpy.mean(valores_pdistance)
print 'standard deviation p-distance SPEA'
print numpy.std(valores_pdistance)
print 'mean hypervolume SPEA'
print numpy.mean(valores_hv)
print 'standard deviation hypervolume SPEA'
print numpy.std(valores_hv)
plt.show()
def setUp(self):
self.hv2d = hypervolume([[3, 1], [2, 2], [1, 3]])
def compute_hypervolume(self, pop):
if pop.champion.f[0] == self._UNFEASIBLE:
raise Exception(
'Input population contains only unfeasible individuals')
hv = hypervolume(pop)
return (hv.compute(self._compute_ref_point()) * DAY2SEC / AU)
def test4d_dominated(self):
hv = hypervolume([[1, 1, 1, 1], [2, 2, 2, 2]])
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.hv4d()), 16)
self.assertEqual(
hv.compute(r=(3, 3, 3, 3), algorithm=hv_algorithm.fpl()), 16)
import numpy as np
from metrics3 import hv2DContribution
from PyGMO.util import hypervolume
N = 10
hvCont = np.zeros(N)
points = np.random.random((N,2))
points = np.sort(points,axis=0)
points[:,1] = points[:,1][::-1]
ref = points.max(axis=0)*1.1
hv = hypervolume(points.tolist())
for i in np.arange(N):
hvCont[i] = hv.exclusive(i,ref.tolist())
hvCont2 = hv2DContribution(points,ref)
diff = np.sqrt(np.sum((hvCont - hvCont2)**2)/N)
print diff
print hvCont
print hvCont2