def test2DNormalDist(self): # prepare data U = dists.J( [dists.Normal(2.0, .5, -1, 4), dists.Normal(1.0, .5, -1, 3)]) U = dists.J( [dists.Normal(0.5, .5, -1, 2), dists.Normal(0.5, .4, -1, 2)]) np.random.seed(1234567) trainSamples = U.rvs(300) testSamples = U.rvs(1000) # build parameter set dist = SGDEdist.byLearnerSGDEConfig( trainSamples, config={ "grid_level": 5, "grid_type": "modlinear", "refinement_numSteps": 0, "refinement_numPoints": 10, "regularization_type": "Laplace", "crossValidation_lambda": 0.000562341, "crossValidation_enable": False, "crossValidation_kfold": 5, "crossValidation_silent": False, "sgde_makePositive": False, "sgde_makePositive_candidateSearchAlgorithm": "joined", "sgde_makePositive_interpolationAlgorithm": "setToZero", "sgde_makePositive_generateConsistentGrid": False, "sgde_makePositive_verbose": True, "sgde_unitIntegrand": True }, bounds=U.getBounds()) fig = plt.figure() plotDensity2d(U) fig.show() fig = plt.figure() plotSG2d(dist.grid, dist.alpha, addContour=True, show_negative=True, show_grid_points=True) fig.show() print("2d: mean = %g ~ %g" % (U.mean(), dist.mean())) print("2d: var = %g ~ %g" % (U.var(), dist.var())) plt.show() print("KL = %g" % U.klDivergence(dist, testSamples, testSamples)) print("CE = %g" % dist.crossEntropy(testSamples)) print("MSE = %g" % dist.l2error(U, testSamples, testSamples))
def test_2DNormalDist_variance(self): # prepare data U = dists.J( [dists.Normal(2.0, .5, -1, 4), dists.Normal(1.0, .5, -1, 3)]) # U = dists.J([dists.Normal(0.5, .5, -1, 2), # dists.Normal(0.5, .4, -1, 2)]) # define linear transformation trans = JointTransformation() for a, b in U.getBounds(): trans.add(LinearTransformation(a, b)) # get a sparse grid approximation grid = Grid.createPolyGrid(U.getDim(), 10) grid.getGenerator().regular(5) gs = grid.getStorage() # now refine adaptively 5 times p = DataVector(gs.getDimension()) nodalValues = np.ndarray(gs.getSize()) # set function values in alpha for i in range(gs.getSize()): gs.getPoint(i).getStandardCoordinates(p) nodalValues[i] = U.pdf(trans.unitToProbabilistic(p.array())) # hierarchize alpha = hierarchize(grid, nodalValues) # # make positive # alpha_vec = DataVector(alpha) # createOperationMakePositive().makePositive(grid, alpha_vec) # alpha = alpha_vec.array() dist = SGDEdist(grid, alpha, bounds=U.getBounds()) fig = plt.figure() plotDensity2d(U) fig.show() fig = plt.figure() plotSG2d(dist.grid, dist.alpha, addContour=True, show_negative=True, show_grid_points=True) fig.show() print("2d: mean = %g ~ %g" % (U.mean(), dist.mean())) print("2d: var = %g ~ %g" % (U.var(), dist.var())) plt.show()
def test2DPPF(self): # prepare data C = np.array([[0.1, 0.08], [0.08, 0.1]]) / 10. U = dists.MultivariateNormal([0.5, 0.5], C, 0, 1) train_samples = U.rvs(1000) fig = plt.figure() plotDensity2d(U) plt.title('true density') fig.show() dist = SGDEdist.byLearnerSGDEConfig(train_samples, config={ "grid_level": 5, "grid_type": "linear", "refinement_numSteps": 0, "refinement_numPoints": 10, "regularization_type": "Laplace", "crossValidation_lambda": 0.000562341, "crossValidation_enable": False, "crossValidation_kfold": 5, "crossValidation_silent": True }, bounds=U.getBounds()) fig = plt.figure() plotDensity2d(dist) plt.title('estimated SGDE density') fig.show() samples = dists.J([dists.Uniform(0, 1), dists.Uniform(0, 1)]).rvs(1000) fig = plt.figure() plt.plot(samples[:, 0], samples[:, 1], "o ") plt.title('uniformly drawn samples') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() transformed_samples = dist.ppf(samples) fig = plt.figure() plt.plot(transformed_samples[:, 0], transformed_samples[:, 1], "o ") plt.title('transformed samples') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() plt.show()
def test2DCDFandPPF(self): # prepare data C = np.array([[0.1, 0.08], [0.08, 0.1]]) / 10. U = dists.MultivariateNormal([0.5, 0.5], C, 0, 1) train_samples = U.rvs(1000) fig = plt.figure() plotDensity2d(U) plt.title('true density') fig.show() dist = KDEDist(train_samples, bounds=U.getBounds()) fig = plt.figure() plotDensity2d(dist) plt.title('estimated KDE density') fig.show() samples = dists.J([dists.Uniform(0, 1), dists.Uniform(0, 1)]).rvs(1000) fig = plt.figure() plt.plot(samples[:, 0], samples[:, 1], "o ") plt.title('u space') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() transformed_samples = dist.ppf(samples) fig = plt.figure() plt.plot(transformed_samples[:, 0], transformed_samples[:, 1], "o ") plt.title('x space (transformed)') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() samples = dist.cdf(transformed_samples) fig = plt.figure() plt.plot(samples[:, 0], samples[:, 1], "o ") plt.title('u space (transformed)') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() plt.show()
def tesst2DPPF(self): # prepare data numDims = 2 mean = 0.5 C = np.array([[0.1, 0.08], [0.08, 0.1]]) / 10. stddev = np.sqrt(C[0, 0]) U = dists.MultivariateNormal(np.ones(numDims) * mean, C, 0, 1) dist = NatafDist.normal_marginals(mean, stddev, C, bounds=U.getBounds()) fig = plt.figure() plotDensity2d(U) plt.title('true density') fig.show() fig = plt.figure() plotDensity2d(dist) plt.title('estimated Nataf density') fig.show() samples = dists.J([dists.Uniform(0, 1), dists.Uniform(0, 1)]).rvs(1000) fig = plt.figure() plt.plot(samples[:, 0], samples[:, 1], "o ") plt.title('uniformly drawn samples') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() transformed_samples = dist.ppf(samples) fig = plt.figure() plt.plot(transformed_samples[:, 0], transformed_samples[:, 1], "o ") plt.title('transformed samples') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() plt.show()
def test2DMarginalize(self): # prepare data C = np.array([[0.2, 0.08], [0.08, 0.2]]) / 10. U = dists.MultivariateNormal([0.5, 0.5], C, 0, 1) fig = plt.figure() plotDensity2d(U) plt.title('true density') fig.show() samples = U.rvs(1000) kde = KDEDist(samples) # fig = plt.figure() # plotDensity2d(kde) # plt.title('estimated KDE density') # fig.show() # marginalize opMarg = createOperationDensityMarginalizeKDE(kde.dist) kdeX = kde.marginalizeToDimX(0) kdeY = kde.marginalizeToDimX(1) fig = plt.figure() plotDensity1d(kdeX) plotDensity1d(kdeY) plt.title('margToDimX denstities') fig.show() kdeX = kde.marginalize(1) kdeY = kde.marginalize(0) fig = plt.figure() plotDensity1d(kdeX) plotDensity1d(kdeY) plt.title('doMarginalize denstities') fig.show() plt.show()
def test2DPPF(self): # prepare data C = np.array([[0.1, 0.08], [0.08, 0.1]]) / 10. U = dists.MultivariateNormal([0.5, 0.5], C, 0, 1) fig = plt.figure() plotDensity2d(U) plt.title('true density') fig.show() dist = KDEDist(U.rvs(1000), kernelType=KernelType_EPANECHNIKOV, bounds=U.getBounds()) fig = plt.figure() plotDensity2d(dist) plt.title('estimated KDE density') fig.show() samples = dists.J([dists.Uniform(0, 1), dists.Uniform(0, 1)]).rvs(1000) fig = plt.figure() plt.plot(samples[:, 0], samples[:, 1], "o ") plt.title('uniformly drawn samples') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() transformed_samples = dist.ppf(samples) fig = plt.figure() plt.plot(transformed_samples[:, 0], transformed_samples[:, 1], "o ") plt.title('transformed samples') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() plt.show()
def test2DCovarianceMatrix(self): # prepare data np.random.seed(1234567) C = np.array([[0.3, 0.09], [0.09, 0.3]]) / 10. U = dists.MultivariateNormal([0.5, 0.5], C, 0, 1) samples = U.rvs(2000) kde = KDEDist(samples) sgde = SGDEdist.byLearnerSGDEConfig( samples, bounds=U.getBounds(), config={ "grid_level": 5, "grid_type": "linear", "grid_maxDegree": 1, "refinement_numSteps": 0, "refinement_numPoints": 10, "solver_threshold": 1e-10, "solver_verbose": False, "regularization_type": "Laplace", "crossValidation_lambda": 3.16228e-06, "crossValidation_enable": False, "crossValidation_kfold": 5, "crossValidation_silent": False, "sgde_makePositive": True, "sgde_makePositive_candidateSearchAlgorithm": "joined", "sgde_makePositive_interpolationAlgorithm": "setToZero", "sgde_generateConsistentGrid": True, "sgde_unitIntegrand": True }) sgde_x1 = sgde.marginalizeToDimX(0) sgde_x2 = sgde.marginalizeToDimX(1) plt.figure() plotDensity1d(sgde_x1, label="x1") plotDensity1d(sgde_x2, label="x2") plt.title( "mean: x1=%g, x2=%g; var: x1=%g, x2=%g" % (sgde_x1.mean(), sgde_x2.mean(), sgde_x1.var(), sgde_x2.var())) plt.legend() jsonStr = sgde.toJson() jsonObject = json.loads(jsonStr) sgde = Dist.fromJson(jsonObject) fig = plt.figure() plotDensity2d(U, addContour=True) plt.title("analytic") fig = plt.figure() plotDensity2d(kde, addContour=True) plt.title("kde") fig = plt.figure() plotDensity2d(sgde, addContour=True) plt.title("sgde (I(f) = %g)" % (doQuadrature(sgde.grid, sgde.alpha), )) # print the results print("E(x) ~ %g ~ %g" % (kde.mean(), sgde.mean())) print("V(x) ~ %g ~ %g" % (kde.var(), sgde.var())) print("-" * 60) print(kde.cov()) print(sgde.cov()) self.assertTrue(np.linalg.norm(C - kde.cov()) < 1e-2, "KDE cov wrong") self.assertTrue( np.linalg.norm(np.corrcoef(samples.T) - kde.corrcoeff()) < 1e-1, "KDE corrcoef wrong") plt.show()
def test2DCDFandPPF(self, plot=True): # prepare data C = np.array([[0.1, 0.08], [0.08, 0.1]]) / 10. U = dists.MultivariateNormal([0.5, 0.5], C, 0, 1) train_samples = U.rvs(1000) if plot: fig = plt.figure() plotDensity2d(U) plt.title('true density') fig.show() dist = SGDEdist.byLearnerSGDEConfig(train_samples, config={ "grid_level": 5, "grid_type": "polyClenshawCurtis", "refinement_numSteps": 0, "refinement_numPoints": 10, "regularization_type": "Laplace", "crossValidation_lambda": 0.000562341, "crossValidation_enable": False, "crossValidation_kfold": 5, "crossValidation_silent": True, "sgde_makePositive": False }, bounds=U.getBounds()) if plot: fig = plt.figure() plotDensity2d(dist) plt.title('estimated SGDE density') fig.show() samples = dists.J([dists.Uniform(0, 1), dists.Uniform(0, 1)]).rvs(500) if plot: fig = plt.figure() plt.plot(samples[:, 0], samples[:, 1], "o ") plt.title('u space') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() else: print("-" * 80) print(samples) transformed_samples = dist.ppf(samples, shuffle=False) if plot: fig = plt.figure() plt.plot(transformed_samples[:, 0], transformed_samples[:, 1], "o ") plt.title('x space (transformed)') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() else: print("-" * 80) print(transformed_samples) samples = dist.cdf(transformed_samples, shuffle=False) if plot: fig = plt.figure() plt.plot(samples[:, 0], samples[:, 1], "o ") plt.title('u space (transformed)') plt.xlim(0, 1) plt.ylim(0, 1) fig.show() plt.show() else: print("-" * 80) print(samples)
def test2DNormalMoments(self): mean = 0 var = 0.5 U = dists.J( [dists.Normal(mean, var, -2, 2), dists.Normal(mean, var, -2, 2)]) np.random.seed(1234567) trainSamples = U.rvs(1000) dist = SGDEdist.byLearnerSGDEConfig(trainSamples, config={ "grid_level": 5, "grid_type": "linear", "refinement_numSteps": 0, "refinement_numPoints": 10, "regularization_type": "Laplace", "crossValidation_lambda": 0.000562341, "crossValidation_enable": False, "crossValidation_kfold": 5, "crossValidation_silent": True, "sgde_makePositive": True }, bounds=U.getBounds()) samples_dist = dist.rvs(1000, shuffle=True) kde = KDEDist(trainSamples) samples_kde = kde.rvs(1000, shuffle=True) # ----------------------------------------------- self.assertTrue( np.abs(U.mean() - dist.mean()) < 1e-2, "SGDE mean wrong") self.assertTrue( np.abs(U.var() - dist.var()) < 4e-2, "SGDE variance wrong") # ----------------------------------------------- # print the results print("E(x) ~ %g ~ %g" % (kde.mean(), dist.mean())) print("V(x) ~ %g ~ %g" % (kde.var(), dist.var())) print( "log ~ %g ~ %g" % (kde.crossEntropy(trainSamples), dist.crossEntropy(trainSamples))) print("-" * 60) print(dist.cov()) print(kde.cov()) sgde_x1 = dist.marginalizeToDimX(0) kde_x1 = kde.marginalizeToDimX(0) plt.figure() plotDensity1d(U.getDistributions()[0], label="analytic") plotDensity1d(sgde_x1, label="sgde") plotDensity1d(kde_x1, label="kde") plt.title("mean: sgde=%g, kde=%g; var: sgde=%g, kde=%g" % (sgde_x1.mean(), kde_x1.mean(), sgde_x1.var(), kde_x1.var())) plt.legend() fig = plt.figure() plotDensity2d(U, addContour=True) plt.title("analytic") fig = plt.figure() plotDensity2d(kde, addContour=True) plt.scatter(samples_kde[:, 0], samples_kde[:, 1]) plt.title("kde") fig = plt.figure() plotDensity2d(dist, addContour=True) plt.scatter(samples_dist[:, 0], samples_dist[:, 1]) plt.title( "sgde (I(f) = %g)" % (np.prod(U.getBounds()) * doQuadrature(dist.grid, dist.alpha), )) plt.show()