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Version 0.5.25 (2022-12-28)

Fixed

  • Fix a few bugs which caused demos to fail.

Version 0.5.24 (2022-09-30)

Fixed

  • Fix versioning in PyPI release tarballs.

Version 0.5.23 (2022-09-30)

Added

  • Support initialize_from_random and initialize_from_value for CategoricalMarkovChain.

Fixed

  • Fix support for recent SciPy versions.

Version 0.5.22 (2021-03-19)

Fixed

  • Fix #122: Add support for arrays of number of trials in a mixture of multinomials and binomials.

Version 0.5.21 (2021-03-04)

Fixed

  • Use time.time instead of the deprecated time.clock.

Version 0.5.20 (2020-10-06)

Fixed

  • Fix sequence indexing in Categorical moments.

Version 0.5.19 (2019-12-11)

Fixed

  • Improve memory usage in SumMultiply when some input nodes are just constants (e.g., NumPy arrays).

Version 0.5.18 (2019-01-07)

Fixed

  • Fix mask handling in Gate node.

Version 0.5.17 (2018-04-18)

Changed

  • Import plot module automatically if possible (i.e., if matplotlib available)

Version 0.5.16 (2018-04-17)

Fixed

  • Fix matplotlib dependency removal.

Version 0.5.15 (2018-04-17)

Changed

  • Matplotlib was removed from installation requirements.

Version 0.5.14 (2018-03-09)

Added

  • Support phi_bias for exponential family nodes. This can be used for simple regularization.

Version 0.5.13 (2018-03-09)

Changed

  • Support "prior" for GammaShape.

Version 0.5.12 (2017-10-19)

Changed

  • Skip all image comparison tests for now.

Fixed

  • Support (0,0)-shape matrices in Cholesky functions.

Version 0.5.11 (2017-09-26)

Fixed

  • Handle scalar moments of the innovation vector properly in Gaussian Markov chain.
  • Skip some failing image comparison unit tests. Image comparison tests will be deprecated at some point.

Version 0.5.10 (2017-09-02)

Fixed

  • Fix release

Version 0.5.9 (2017-09-02)

Added

  • Support tqdm for monitoring the iteration progress (#105).
  • Allow VB iteration without maximum number of iteration steps (#104).
  • Add ellipse patch creation from covariance or precision (#103).

Version 0.5.8 (2017-05-13)

Fixed

  • Implement random sampling for Poisson
  • Update some old licensing information

Version 0.5.7 (2016-11-15)

Fixed

  • Fix deterministic mappings in Mixture, which caused NaNs in results

Version 0.5.6 (2016-11-08)

Fixed

  • Remove significant reshaping overhead in Cholesky computations in linalg module
  • Fix minor plate multiplier issues

Version 0.5.5 (2016-11-04)

Fixed

  • Fix critical plate multiplier bug in Take node. The bug caused basically all models with Take node to be incorrect.
  • Fix ndim handling in GaussianGamma and Wishart
  • Support lists and other array-convertible formats in several nodes

Version 0.5.4 (2016-10-27)

Added

  • Add conversion from Gamma to scalar Wishart
  • Implement message from GaussianMarkovChain to its input parent node
  • Add generic unit test functions for messages and moments

Changed

  • Require NumPy 1.10 or greater

Version 0.5.3 (2016-08-17)

Fixed

  • Fix package metadata handling
  • Fix Travis test errors

Version 0.5.2 (2016-08-17)

Added

  • Add a node method to obtain the VB lower bound terms that contain the node

Fixed

  • Handle empty CLI argument lists in CLI argument parsing
  • Fix handling of the two variables (Gaussian and Gamma) in GaussianGamma methods
  • Fix minor bugs, including CGF in GaussianMarkovChain with inputs

Version 0.5.1 (2016-05-17)

Fixed

  • Accept lists as number of multinomial trials
  • Fix typo in handling concentration regularization shape

Version 0.5.0 (2016-05-04)

Added

  • Implement the following new nodes:
    • Take
    • MultiMixture
    • ConcatGaussian
    • GaussianWishart
    • GaussianGamma
    • Choose
    • Concentration
    • MaximumLikelihood
    • Function
  • Add preliminary support for maximum likelihood estimation (implemented only for Wishart moments now)
  • Support multiplying Wishart variable by a gamma variable (scale method in Wishart class)
  • Support GaussianWishart and GaussianGamma in GaussianMarkovChain
  • Support 1-p operation (complement) for beta variables
  • Implement random sampling for Multinomial node
  • Support ndim in many linalg functions and Gaussian-related nodes
  • Add conjugate gradient support for Multinomial and Mixture
  • Support monitoring of only some nodes when learning
  • Add diag() method to Gamma node
  • Add some examples as Jupyter notebooks

Changed

  • Simplify GaussianARD mean parent handling
  • Move documentation to Read the Docs

Fixed

  • Fix an axis mapping bug in Mixture (#39)
  • Fix NaN issue in Mixture with deterministic mappings (#66)
  • Fix Dirichlet node parent validation
  • Fix VB iteration when no data given (#67)
  • Fix axis label support in Hinton plots (#64)
  • Fix recursive node deletion

Version 0.4.1 (2015-11-02)

  • Define extra dependencies needed to build the documentation

Version 0.4.0 (2015-11-02)

  • Implement Add node for Gaussian nodes
  • Raise error if attempting to install on Python 2
  • Return both relative and absolute errors from numerical gradient checking
  • Add nose plugin to filter unit test warnings appropriately

Version 0.3.9 (2015-10-16)

  • Fix Gaussian ARD node sampling

Version 0.3.8 (2015-10-16)

  • Fix Gaussian node sampling

Version 0.3.7 (2015-09-23)

  • Enable keyword arguments when plotting via the inference engine
  • Add initial support for logging

Version 0.3.6 (2015-08-12)

  • Add maximum likelihood node for the shape parameter of Gamma
  • Fix Hinton diagrams for 1-D and 0-D Gaussians
  • Fix autosave interval counter
  • Fix bugs in constant nodes

Version 0.3.5 (2015-06-09)

  • Fix indexing bug in VB optimization (not VB-EM)
  • Fix demos

Version 0.3.4 (2015-06-09)

  • Fix computation of probability density of Dirichlet nodes
  • Use unit tests for all code snippets in docstrings and documentation

Version 0.3.3 (2015-06-05)

  • Change license to the MIT license
  • Improve SumMultiply efficiency
  • Hinton diagrams for gamma variables
  • Possible to load only nodes from HDF5 results

Version 0.3.2 (2015-03-16)

  • Concatenate node added
  • Unit tests for plotting fixed

Version 0.3.1 (2015-03-12)

  • Gaussian mixture 2D plotting improvements
  • Covariance matrix sampling improvements
  • Minor documentation fixes

Version 0.3 (2015-03-05)

  • Add gradient-based optimization methods (Riemannian/natural gradient or normal)
  • Add collapsed inference
  • Add the pattern search method
  • Add deterministic annealing
  • Add stochastic variational inference
  • Add optional input signals to Gaussian Markov chains
  • Add unit tests for plotting functions (by Hannu Hartikainen)
  • Add printing support to nodes
  • Drop Python 3.2 support

Version 0.2.3 (2014-12-03)

  • Fix matplotlib compatibility broken by recent changes in matplotlib
  • Add random sampling for Binomial and Bernoulli nodes
  • Fix minor bugs, for instance, in plot module

Version 0.2.2 (2014-11-01)

  • Fix normalization of categorical Markov chain probabilities (fixes HMM demo)
  • Fix initialization from parameter values

Version 0.2.1 (2014-09-30)

  • Add workaround for matplotlib 1.4.0 bug related to interactive mode which affected monitoring
  • Fix bugs in Hinton diagrams for Gaussian variables

Version 0.2 (2014-08-06)

  • Added all remaining common distributions: Bernoulli, binomial, multinomial, Poisson, beta, exponential.
  • Added Gaussian arrays (not just scalars or vectors).
  • Added Gaussian Markov chains with time-varying or swithing dynamics.
  • Added discrete Markov chains (enabling hidden Markov models).
  • Added joint Gaussian-Wishart and Gaussian-gamma nodes.
  • Added deterministic gating node.
  • Added deterministic general sum-product node.
  • Added parameter expansion for Gaussian arrays and time-varying/switching Gaussian Markov chains.
  • Added new plotting functions: pdf, Hinton diagram.
  • Added monitoring of posterior distributions during iteration.
  • Finished documentation and added API.

Version 0.1 (2013-07-25)

  • Added variational message passing inference engine.
  • Added the following common distributions: Gaussian vector, gamma, Wishart, Dirichlet, categorical.
  • Added Gaussian Markov chain.
  • Added parameter expansion for Gaussian vectors and Gaussian Markov chain.
  • Added stochastic mixture node.
  • Added deterministic dot product node.
  • Created preliminary version of the documentation.