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# -*- coding: utf-8 -*-
"""
Created on Sat Apr 16 15:02:13 2011
@author: Josef Perktold
"""
import numpy as np
from numpy.testing import (assert_almost_equal, assert_array_almost_equal,
assert_allclose)
from statsmodels.sandbox.distributions.multivariate import (
mvstdtprob, mvstdnormcdf)
from statsmodels.sandbox.distributions.mv_normal import MVT, MVNormal
class Test_MVN_MVT_prob(object):
#test for block integratal, cdf, of multivariate t and normal
#comparison results from R
@classmethod
def setup_class(cls):
cls.corr_equal = np.asarray([[1.0, 0.5, 0.5],[0.5,1,0.5],[0.5,0.5,1]])
cls.a = -1 * np.ones(3)
cls.b = 3 * np.ones(3)
cls.df = 4
corr2 = cls.corr_equal.copy()
corr2[2,1] = -0.5
cls.corr2 = corr2
def test_mvn_mvt_1(self):
a, b = self.a, self.b
df = self.df
corr_equal = self.corr_equal
#result from R, mvtnorm with option
#algorithm = GenzBretz(maxpts = 100000, abseps = 0.000001, releps = 0)
# or higher
probmvt_R = 0.60414 #report, ed error approx. 7.5e-06
probmvn_R = 0.673970 #reported error approx. 6.4e-07
assert_almost_equal(probmvt_R, mvstdtprob(a, b, corr_equal, df), 4)
assert_almost_equal(probmvn_R,
mvstdnormcdf(a, b, corr_equal, abseps=1e-5), 4)
mvn_high = mvstdnormcdf(a, b, corr_equal, abseps=1e-8, maxpts=10000000)
assert_almost_equal(probmvn_R, mvn_high, 5)
#this still barely fails sometimes at 6 why?? error is -7.2627419411830374e-007
#>>> 0.67396999999999996 - 0.67397072627419408
#-7.2627419411830374e-007
#>>> assert_almost_equal(0.67396999999999996, 0.67397072627419408, 6)
#Fail
def test_mvn_mvt_2(self):
a, b = self.a, self.b
df = self.df
corr2 = self.corr2
probmvn_R = 0.6472497 #reported error approx. 7.7e-08
probmvt_R = 0.5881863 #highest reported error up to approx. 1.99e-06
assert_almost_equal(probmvt_R, mvstdtprob(a, b, corr2, df), 4)
assert_almost_equal(probmvn_R, mvstdnormcdf(a, b, corr2, abseps=1e-5), 4)
def test_mvn_mvt_3(self):
a, b = self.a, self.b
df = self.df
corr2 = self.corr2
a2 = a.copy()
a2[:] = -np.inf
# using higher precision in R, error approx. 6.866163e-07
probmvn_R = 0.9961141
# using higher precision in R, error approx. 1.6e-07
probmvt_R = 0.9522146
quadkwds = {'epsabs': 1e-08}
probmvt = mvstdtprob(a2, b, corr2, df, quadkwds=quadkwds)
assert_allclose(probmvt_R, probmvt, atol=5e-4)
probmvn = mvstdnormcdf(a2, b, corr2, maxpts=100000, abseps=1e-5)
assert_allclose(probmvn_R, probmvn, atol=1e-4)
def test_mvn_mvt_4(self):
a, bl = self.a, self.b
df = self.df
corr2 = self.corr2
#from 0 to inf
#print '0 inf'
a2 = a.copy()
a2[:] = -np.inf
probmvn_R = 0.1666667 #error approx. 6.1e-08
probmvt_R = 0.1666667 #error approx. 8.2e-08
assert_almost_equal(probmvt_R, mvstdtprob(np.zeros(3), -a2, corr2, df), 4)
assert_almost_equal(probmvn_R,
mvstdnormcdf(np.zeros(3), -a2, corr2,
maxpts=100000, abseps=1e-5), 4)
def test_mvn_mvt_5(self):
a, bl = self.a, self.b
df = self.df
corr2 = self.corr2
#unequal integration bounds
#print "ue"
a3 = np.array([0.5, -0.5, 0.5])
probmvn_R = 0.06910487 #using higher precision in R, error approx. 3.5e-08
probmvt_R = 0.05797867 #using higher precision in R, error approx. 5.8e-08
assert_almost_equal(mvstdtprob(a3, a3+1, corr2, df), probmvt_R, 4)
assert_almost_equal(probmvn_R, mvstdnormcdf(a3, a3+1, corr2,
maxpts=100000, abseps=1e-5), 4)
class TestMVDistributions(object):
#this is not well organized
@classmethod
def setup_class(cls):
covx = np.array([[1.0, 0.5], [0.5, 1.0]])
mu3 = [-1, 0., 2.]
cov3 = np.array([[ 1. , 0.5 , 0.75],
[ 0.5 , 1.5 , 0.6 ],
[ 0.75, 0.6 , 2. ]])
cls.mu3 = mu3
cls.cov3 = cov3
mvn3 = MVNormal(mu3, cov3)
mvn3c = MVNormal(np.array([0,0,0]), cov3)
cls.mvn3 = mvn3
cls.mvn3c = mvn3c
def test_mvn_pdf(self):
cov3 = self.cov3
mvn3 = self.mvn3
r_val = [-7.667977543898155, -6.917977543898155, -5.167977543898155]
assert_array_almost_equal(mvn3.logpdf(cov3), r_val, decimal=14)
# decimal 18
r_val = [0.000467562492721686, 0.000989829804859273,
0.005696077243833402]
assert_array_almost_equal(mvn3.pdf(cov3), r_val, decimal=17)
mvn3b = MVNormal(np.array([0, 0, 0]), cov3)
r_val = [0.02914269740502042, 0.02269635555984291, 0.01767593948287269]
assert_array_almost_equal(mvn3b.pdf(cov3), r_val, decimal=16)
def test_mvt_pdf(self, reset_randomstate):
cov3 = self.cov3
mu3 = self.mu3
mvt = MVT((0, 0), 1, 5)
assert_almost_equal(mvt.logpdf(np.array([0., 0.])), -1.837877066409345,
decimal=15)
assert_almost_equal(mvt.pdf(np.array([0., 0.])), 0.1591549430918953,
decimal=15)
mvt.logpdf(np.array([1., 1.])) - (-3.01552989458359)
mvt1 = MVT((0, 0), 1, 1)
mvt1.logpdf(np.array([1., 1.])) - (-3.48579549941151) # decimal=16
rvs = mvt.rvs(100000)
assert_almost_equal(np.cov(rvs, rowvar=False), mvt.cov, decimal=1)
mvt31 = MVT(mu3, cov3, 1)
assert_almost_equal(mvt31.pdf(cov3),
[0.0007276818698165781, 0.0009980625182293658,
0.0027661422056214652],
decimal=17)
mvt = MVT(mu3, cov3, 3)
assert_almost_equal(mvt.pdf(cov3),
[0.000863777424247410, 0.001277510788307594,
0.004156314279452241],
decimal=17)
if __name__ == '__main__':
import pytest
pytest.main([__file__, '-vvs', '-x', '--pdb'])