diff --git a/GPy/testing/unit_tests.py b/GPy/testing/unit_tests.py index ff6abf33..246d40d1 100644 --- a/GPy/testing/unit_tests.py +++ b/GPy/testing/unit_tests.py @@ -23,7 +23,7 @@ class GradientTests(unittest.TestCase): self.X2D = np.random.uniform(-3., 3., (40, 2)) self.Y2D = np.sin(self.X2D[:, 0:1]) * np.sin(self.X2D[:, 1:2]) + np.random.randn(40, 1) * 0.05 - def check_model_with_white(self, kern, model_type='GPRegression', dimension=1, uncertain_inputs=False): + def check_model(self, kern, model_type='GPRegression', dimension=1, uncertain_inputs=False): # Get the correct gradients if dimension == 1: X = self.X1D @@ -34,8 +34,8 @@ class GradientTests(unittest.TestCase): # Get model type (GPRegression, SparseGPRegression, etc) model_fit = getattr(GPy.models, model_type) - noise = GPy.kern.white(dimension) - kern = kern + noise + # noise = GPy.kern.white(dimension) + kern = kern # + noise if uncertain_inputs: m = model_fit(X, Y, kernel=kern, X_variance=np.random.rand(X.shape[0], X.shape[1])) else: @@ -47,135 +47,135 @@ class GradientTests(unittest.TestCase): def test_GPRegression_rbf_1d(self): ''' Testing the GP regression with rbf kernel with white kernel on 1d data ''' rbf = GPy.kern.rbf(1) - self.check_model_with_white(rbf, model_type='GPRegression', dimension=1) + self.check_model(rbf, model_type='GPRegression', dimension=1) def test_GPRegression_rbf_2D(self): - ''' Testing the GP regression with rbf and white kernel on 2d data ''' + ''' Testing the GP regression with rbf kernel on 2d data ''' rbf = GPy.kern.rbf(2) - self.check_model_with_white(rbf, model_type='GPRegression', dimension=2) + self.check_model(rbf, model_type='GPRegression', dimension=2) def test_GPRegression_rbf_ARD_2D(self): - ''' Testing the GP regression with rbf and white kernel on 2d data ''' + ''' Testing the GP regression with rbf kernel on 2d data ''' k = GPy.kern.rbf(2, ARD=True) - self.check_model_with_white(k, model_type='GPRegression', dimension=2) + self.check_model(k, model_type='GPRegression', dimension=2) def test_GPRegression_mlp_1d(self): ''' Testing the GP regression with mlp kernel with white kernel on 1d data ''' mlp = GPy.kern.mlp(1) - self.check_model_with_white(mlp, model_type='GPRegression', dimension=1) + self.check_model(mlp, model_type='GPRegression', dimension=1) def test_GPRegression_poly_1d(self): ''' Testing the GP regression with polynomial kernel with white kernel on 1d data ''' mlp = GPy.kern.poly(1, degree=5) - self.check_model_with_white(mlp, model_type='GPRegression', dimension=1) + self.check_model(mlp, model_type='GPRegression', dimension=1) def test_GPRegression_matern52_1D(self): ''' Testing the GP regression with matern52 kernel on 1d data ''' matern52 = GPy.kern.Matern52(1) - self.check_model_with_white(matern52, model_type='GPRegression', dimension=1) + self.check_model(matern52, model_type='GPRegression', dimension=1) def test_GPRegression_matern52_2D(self): ''' Testing the GP regression with matern52 kernel on 2d data ''' matern52 = GPy.kern.Matern52(2) - self.check_model_with_white(matern52, model_type='GPRegression', dimension=2) + self.check_model(matern52, model_type='GPRegression', dimension=2) def test_GPRegression_matern52_ARD_2D(self): ''' Testing the GP regression with matern52 kernel on 2d data ''' matern52 = GPy.kern.Matern52(2, ARD=True) - self.check_model_with_white(matern52, model_type='GPRegression', dimension=2) + self.check_model(matern52, model_type='GPRegression', dimension=2) def test_GPRegression_matern32_1D(self): ''' Testing the GP regression with matern32 kernel on 1d data ''' matern32 = GPy.kern.Matern32(1) - self.check_model_with_white(matern32, model_type='GPRegression', dimension=1) + self.check_model(matern32, model_type='GPRegression', dimension=1) def test_GPRegression_matern32_2D(self): ''' Testing the GP regression with matern32 kernel on 2d data ''' matern32 = GPy.kern.Matern32(2) - self.check_model_with_white(matern32, model_type='GPRegression', dimension=2) + self.check_model(matern32, model_type='GPRegression', dimension=2) def test_GPRegression_matern32_ARD_2D(self): ''' Testing the GP regression with matern32 kernel on 2d data ''' matern32 = GPy.kern.Matern32(2, ARD=True) - self.check_model_with_white(matern32, model_type='GPRegression', dimension=2) + self.check_model(matern32, model_type='GPRegression', dimension=2) def test_GPRegression_exponential_1D(self): ''' Testing the GP regression with exponential kernel on 1d data ''' exponential = GPy.kern.exponential(1) - self.check_model_with_white(exponential, model_type='GPRegression', dimension=1) + self.check_model(exponential, model_type='GPRegression', dimension=1) def test_GPRegression_exponential_2D(self): ''' Testing the GP regression with exponential kernel on 2d data ''' exponential = GPy.kern.exponential(2) - self.check_model_with_white(exponential, model_type='GPRegression', dimension=2) + self.check_model(exponential, model_type='GPRegression', dimension=2) def test_GPRegression_exponential_ARD_2D(self): ''' Testing the GP regression with exponential kernel on 2d data ''' exponential = GPy.kern.exponential(2, ARD=True) - self.check_model_with_white(exponential, model_type='GPRegression', dimension=2) + self.check_model(exponential, model_type='GPRegression', dimension=2) def test_GPRegression_bias_kern_1D(self): ''' Testing the GP regression with bias kernel on 1d data ''' bias = GPy.kern.bias(1) - self.check_model_with_white(bias, model_type='GPRegression', dimension=1) + self.check_model(bias, model_type='GPRegression', dimension=1) def test_GPRegression_bias_kern_2D(self): ''' Testing the GP regression with bias kernel on 2d data ''' bias = GPy.kern.bias(2) - self.check_model_with_white(bias, model_type='GPRegression', dimension=2) + self.check_model(bias, model_type='GPRegression', dimension=2) def test_GPRegression_linear_kern_1D_ARD(self): ''' Testing the GP regression with linear kernel on 1d data ''' linear = GPy.kern.linear(1, ARD=True) - self.check_model_with_white(linear, model_type='GPRegression', dimension=1) + self.check_model(linear, model_type='GPRegression', dimension=1) def test_GPRegression_linear_kern_2D_ARD(self): ''' Testing the GP regression with linear kernel on 2d data ''' linear = GPy.kern.linear(2, ARD=True) - self.check_model_with_white(linear, model_type='GPRegression', dimension=2) + self.check_model(linear, model_type='GPRegression', dimension=2) def test_GPRegression_linear_kern_1D(self): ''' Testing the GP regression with linear kernel on 1d data ''' linear = GPy.kern.linear(1) - self.check_model_with_white(linear, model_type='GPRegression', dimension=1) + self.check_model(linear, model_type='GPRegression', dimension=1) def test_GPRegression_linear_kern_2D(self): ''' Testing the GP regression with linear kernel on 2d data ''' linear = GPy.kern.linear(2) - self.check_model_with_white(linear, model_type='GPRegression', dimension=2) + self.check_model(linear, model_type='GPRegression', dimension=2) def test_SparseGPRegression_rbf_white_kern_1d(self): ''' Testing the sparse GP regression with rbf kernel with white kernel on 1d data ''' rbf = GPy.kern.rbf(1) - self.check_model_with_white(rbf, model_type='SparseGPRegression', dimension=1) + self.check_model(rbf, model_type='SparseGPRegression', dimension=1) def test_SparseGPRegression_rbf_white_kern_2D(self): - ''' Testing the sparse GP regression with rbf and white kernel on 2d data ''' + ''' Testing the sparse GP regression with rbf kernel on 2d data ''' rbf = GPy.kern.rbf(2) - self.check_model_with_white(rbf, model_type='SparseGPRegression', dimension=2) + self.check_model(rbf, model_type='SparseGPRegression', dimension=2) def test_SparseGPRegression_rbf_linear_white_kern_1D(self): - ''' Testing the sparse GP regression with rbf and white kernel on 2d data ''' + ''' Testing the sparse GP regression with rbf kernel on 2d data ''' rbflin = GPy.kern.rbf(1) + GPy.kern.linear(1) - self.check_model_with_white(rbflin, model_type='SparseGPRegression', dimension=1) + self.check_model(rbflin, model_type='SparseGPRegression', dimension=1) def test_SparseGPRegression_rbf_linear_white_kern_2D(self): - ''' Testing the sparse GP regression with rbf and white kernel on 2d data ''' + ''' Testing the sparse GP regression with rbf kernel on 2d data ''' rbflin = GPy.kern.rbf(2) + GPy.kern.linear(2) - self.check_model_with_white(rbflin, model_type='SparseGPRegression', dimension=2) + self.check_model(rbflin, model_type='SparseGPRegression', dimension=2) def test_SparseGPRegression_rbf_linear_white_kern_2D_uncertain_inputs(self): - ''' Testing the sparse GP regression with rbf, linear and white kernel on 2d data with uncertain inputs''' + ''' Testing the sparse GP regression with rbf, linear kernel on 2d data with uncertain inputs''' rbflin = GPy.kern.rbf(2) + GPy.kern.linear(2) - self.check_model_with_white(rbflin, model_type='SparseGPRegression', dimension=2, uncertain_inputs=1) + self.check_model(rbflin, model_type='SparseGPRegression', dimension=2, uncertain_inputs=1) def test_SparseGPRegression_rbf_linear_white_kern_1D_uncertain_inputs(self): - ''' Testing the sparse GP regression with rbf, linear and white kernel on 1d data with uncertain inputs''' + ''' Testing the sparse GP regression with rbf, linear kernel on 1d data with uncertain inputs''' rbflin = GPy.kern.rbf(1) + GPy.kern.linear(1) - self.check_model_with_white(rbflin, model_type='SparseGPRegression', dimension=1, uncertain_inputs=1) + self.check_model(rbflin, model_type='SparseGPRegression', dimension=1, uncertain_inputs=1) def test_GPLVM_rbf_bias_white_kern_2D(self): - """ Testing GPLVM with rbf + bias and white kernel """ + """ Testing GPLVM with rbf + bias kernel """ N, input_dim, D = 50, 1, 2 X = np.random.rand(N, input_dim) k = GPy.kern.rbf(input_dim, 0.5, 0.9 * np.ones((1,))) + GPy.kern.bias(input_dim, 0.1) + GPy.kern.white(input_dim, 0.05) @@ -185,7 +185,7 @@ class GradientTests(unittest.TestCase): self.assertTrue(m.checkgrad()) def test_GPLVM_rbf_linear_white_kern_2D(self): - """ Testing GPLVM with rbf + bias and white kernel """ + """ Testing GPLVM with rbf + bias kernel """ N, input_dim, D = 50, 1, 2 X = np.random.rand(N, input_dim) k = GPy.kern.linear(input_dim) + GPy.kern.bias(input_dim, 0.1) + GPy.kern.white(input_dim, 0.05)