# Copyright 2016 James Hensman, alexggmatthews # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. # You may obtain a copy of the License at # # http://www.apache.org/licenses/LICENSE-2.0 # # Unless required by applicable law or agreed to in writing, software # distributed under the License is distributed on an "AS IS" BASIS, # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. # See the License for the specific language governing permissions and # limitations under the License. from typing import Optional import numpy as np import tensorflow as tf import tensorflow_probability as tfp from ..base import Parameter from ..conditionals import conditional from ..inducing_variables import InducingPoints from ..kernels import Kernel from ..likelihoods import Likelihood from ..mean_functions import MeanFunction from ..models.model import Data, GPModel, MeanAndVariance from ..utilities import to_default_float from .util import inducingpoint_wrapper class SGPMC(GPModel): """ This is the Sparse Variational GP using MCMC (SGPMC). The key reference is :: @inproceedings{hensman2015mcmc, title={MCMC for Variatinoally Sparse Gaussian Processes}, author={Hensman, James and Matthews, Alexander G. de G. and Filippone, Maurizio and Ghahramani, Zoubin}, booktitle={Proceedings of NIPS}, year={2015} } The latent function values are represented by centered (whitened) variables, so .. math:: :nowrap: \\begin{align} \\mathbf v & \\sim N(0, \\mathbf I) \\\\ \\mathbf u &= \\mathbf L\\mathbf v \\end{align} with .. math:: \\mathbf L \\mathbf L^\\top = \\mathbf K """ def __init__(self, data: Data, kernel: Kernel, likelihood: Likelihood, mean_function: Optional[MeanFunction] = None, num_latent: int = 1, inducing_variable: Optional[InducingPoints] = None): """ data is a tuple of X, Y with X, a data matrix, size [N, D] and Y, a data matrix, size [N, R] Z is a data matrix, of inducing inputs, size [M, D] kernel, likelihood, mean_function are appropriate GPflow objects """ super().__init__(kernel, likelihood, mean_function, num_latent=num_latent) self.data = data self.num_data = data[0].shape[0] self.inducing_variable = inducingpoint_wrapper(inducing_variable) self.V = Parameter(np.zeros((len(self.inducing_variable), self.num_latent))) self.V.prior = tfp.distributions.Normal(loc=to_default_float(0.), scale=to_default_float(1.)) def log_likelihood(self, *args, **kwargs) -> tf.Tensor: """ This function computes the optimal density for v, q*(v), up to a constant """ # get the (marginals of) q(f): exactly predicting! x_data, y_data = self.data fmean, fvar = self.predict_f(x_data, full_cov=False) return tf.reduce_sum(self.likelihood.variational_expectations(fmean, fvar, y_data)) def predict_f(self, X: tf.Tensor, full_cov=False, full_output_cov=False) -> MeanAndVariance: """ Xnew is a data matrix, point at which we want to predict This method computes p(F* | (U=LV) ) where F* are points on the GP at Xnew, F=LV are points on the GP at Z, """ mu, var = conditional(X, self.inducing_variable, self.kernel, self.V, full_cov=full_cov, q_sqrt=None, white=True, full_output_cov=full_output_cov) return mu + self.mean_function(X), var