What's Changed

Fix import of PjitFunction by @stephen-huan in https://github.com/JaxGaussianProcesses/GPJax/pull/521
Bump version by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/522

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.11.1...v0.11.2

Scientific Software - Peer-reviewed - Python
Published by thomaspinder 12 months ago

What's Changed

Add extra tests by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/507
Introduce NonNegativeReal parameters by @jamesbriant in https://github.com/JaxGaussianProcesses/GPJax/pull/512
Add fit_lbfgs using Optax by @theo-brown in https://github.com/JaxGaussianProcesses/GPJax/pull/514
bump patch version by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/517

New Contributors

@jamesbriant made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/512
@theo-brown made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/514

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.11.0...v0.11.1

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 1 year ago

What's Changed

Add JIT-safe assertions by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/504
Numpyro distribution by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/506

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.10.1...v0.11.0

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 1 year ago

What's Changed

Make zero-mean fn. constant a Static class by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/500

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.10.0...v0.10.1

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 1 year ago

What's Changed

Unpin cola/jax/jaxlib/flax by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/503

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.9.5...v0.10.0

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 1 year ago

What's Changed

Fix jaxtyping and flax issues in tests by @stephen-huan in https://github.com/JaxGaussianProcesses/GPJax/pull/498
Deprecate decision making by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/501
Move to MIT license by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/502

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.9.4...v0.9.5

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 1 year ago

What's Changed

Fix optional array arguments in class constructors by @stefanocortinovis in https://github.com/JaxGaussianProcesses/GPJax/pull/488
Fix broken latex equations by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/489
fix: update links in documentation to use the correct path for examples by @Qazalbash in https://github.com/JaxGaussianProcesses/GPJax/pull/491
update README regression example with negative objective by @huylenguyen in https://github.com/JaxGaussianProcesses/GPJax/pull/492
Fix tests with jax 0.5.1 by @stephen-huan in https://github.com/JaxGaussianProcesses/GPJax/pull/494

New Contributors

@Qazalbash made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/491
@huylenguyen made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/492

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.9.3...v0.9.4

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 1 year ago

What's Changed

optional solveralgorithm parameter to sampleapprox by @theorashid in https://github.com/JaxGaussianProcesses/GPJax/pull/478
Fix broken examples by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/480
Fix callbacks by @stefanocortinovis in https://github.com/JaxGaussianProcesses/GPJax/pull/483
Fix Static check in Gaussian likelihood by @stefanocortinovis in https://github.com/JaxGaussianProcesses/GPJax/pull/484
Allow to pass trainable inducing inputs to AbstractVariationalGaussian by @stefanocortinovis in https://github.com/JaxGaussianProcesses/GPJax/pull/485
Swap collapsedvi.md and uncollapsedvi.md by @stefanocortinovis in https://github.com/JaxGaussianProcesses/GPJax/pull/486
Bump project version to 0.9.3 by @stefanocortinovis in https://github.com/JaxGaussianProcesses/GPJax/pull/487

New Contributors

@stefanocortinovis made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/483

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.9.1...v0.9.3

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 1 year ago

What's Changed

Add workflow dispatch by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/466
Add Hatch by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/468
Add workflow by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/470
Remove progress_bar.py by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/472
Remove redundant pyspelling files by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/473

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.9.0...v0.9.1

Scientific Software - Peer-reviewed - Python
Published by thomaspinder almost 2 years ago

Key Changes

In v0.9.0, the backend of GPJax has migrated to the NNX module of Flax (h/t @cgarciae) . This allows us to assign structure to our parameters, hook into Flax's ecosystem, and simplify our underlying code. From a frontend perspective, you may now assign a type to your parameters e.g., PositiveReal and easily invoke the state of your GP.

State

For any component of GPJax, such as a kernel, mean function, prior or posterior GP.etc, you may now realise the state of the component using nnx.Split. For example, the state of a Matérn kernel would be realised by kernel = gpx.kernels.Matern32() _, params = nnx.split(kernel, gpx.parameters.Parameter) This allows users to have low-level control over the exact operations that are made on the parameters. We detail this fully in the Parameters section of our Model Guide notebook.

Parameters

We now recognise the support that a parameter. For example, strictly positive parameters such as the lengthscale or variance are instantiated via the PositiveReal parameter. Meanwhile, parameters that are constrained to be lower triangular matrix are instantiated through the LowerTriangular parameter.

What's Changed

Point CoC breaches to our contact form. by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/451
Quick fix to stop automatic switch to CG by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/454
Fix some type annotations causing failing tests by @stephen-huan in https://github.com/JaxGaussianProcesses/GPJax/pull/456
Feature: Adds probability of improvement as an acquisition function by @miguelgondu in https://github.com/JaxGaussianProcesses/GPJax/pull/458
Add expected improvement utility function by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/460
feat(gpjax/kernels/base.py): add diagonal by @stephen-huan in https://github.com/JaxGaussianProcesses/GPJax/pull/429
Flax/nnx backend by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/440

New Contributors

@stephen-huan made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/456
@miguelgondu made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/458

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.8.2...v0.9.0

Scientific Software - Peer-reviewed - Python
Published by thomaspinder almost 2 years ago

GPJax - v0.8.2

What's Changed

add missing jaxopt dependency by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/445
Bump to v0.8.2 by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/448

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.8.1...v0.8.2

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 2 years ago

GPJax - v0.8.1

What's Changed

Fix broken docs by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/424
Add generic typing information for gps objects by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/425
Perhaps finally a decent LBFGS? by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/426
Fix BO notebook by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/430
Clean up intro to kernels notebook by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/432
Update introtogps.py by @neel-maniar in https://github.com/JaxGaussianProcesses/GPJax/pull/433
Minor typos in mathematical definitions in introtogps.py by @neel-maniar in https://github.com/JaxGaussianProcesses/GPJax/pull/434
Minor typo in analytic expression for Bayesian evidence in introtog… by @neel-maniar in https://github.com/JaxGaussianProcesses/GPJax/pull/438
Fixed mutable default value error in VelocityKernel and HelmholtzKernel dataclasses in python 3.11 by @wejpurvis in https://github.com/JaxGaussianProcesses/GPJax/pull/439
Update dependencies by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/442
Bump version by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/443

New Contributors

@neel-maniar made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/433
@wejpurvis made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/439

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.8.0...v0.8.1

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 2 years ago

GPJax - v0.8.0

Breaking changes

Dropped data masking, multi-output kernels
Namespace paths have changed to full-form i.e., gpx.Prior -> gpx.gps.Prior

What's Changed

Add search space class for BayesOpt by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/355
Add classes for forming acquisition functions by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/359
Add classes for handling posteriors during the decision making loop by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/362
Add logic for running a decision making loop by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/365
Prepare for future batching by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/385
Add decision making functionality by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/386
formatting and spelling by @ivanshalashilin in https://github.com/JaxGaussianProcesses/GPJax/pull/387
Multi output by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/360
Quick fix to remove duplicate file by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/395
Add governance doc by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/398
Fix obs_noise confusion by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/400
bump cola to v0.0.5 by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/405
Jaxopt 2 by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/402
fix config import by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/410
LOOCV objective by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/412
Fix AnalyticalGuassianIntegrator by @meta-inf in https://github.com/JaxGaussianProcesses/GPJax/pull/414
Fix bug and add test. by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/416
Fix typo in CollapsedELBO by @meta-inf in https://github.com/JaxGaussianProcesses/GPJax/pull/417
Bump version by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/411
Cleanup src by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/419
Update README.md by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/418
Update typing.py by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/423
Namespace cleanup by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/408

New Contributors

@meta-inf made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/414

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.7.0...v0.8.0

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 2 years ago

GPJax - v0.7.3

What's Changed

Jaxopt 2 by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/402
fix config import by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/410
LOOCV objective by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/412
Fix AnalyticalGuassianIntegrator by @meta-inf in https://github.com/JaxGaussianProcesses/GPJax/pull/414
Fix bug and add test. by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/416
Fix typo in CollapsedELBO by @meta-inf in https://github.com/JaxGaussianProcesses/GPJax/pull/417
Bump version by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/411

New Contributors

@meta-inf made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/414

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.7.2...0.7.3

Scientific Software - Peer-reviewed - Python
Published by daniel-dodd over 2 years ago

GPJax - v0.7.2

What's Changed

bump cola to v0.0.5 by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/405

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.7.1...v0.7.2

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 2 years ago

GPJax - v0.7.1

What's Changed

Add search space class for BayesOpt by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/355
Add classes for forming acquisition functions by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/359
Add classes for handling posteriors during the decision making loop by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/362
Add logic for running a decision making loop by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/365
Prepare for future batching by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/385
Add decision making functionality by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/386
formatting and spelling by @ivanshalashilin in https://github.com/JaxGaussianProcesses/GPJax/pull/387
Multi output by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/360
Quick fix to remove duplicate file by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/395
Add governance doc by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/398
Fix obs_noise confusion by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/400

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.7.0...v0.7.1

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 2 years ago

GPJax - v0.7.0

What's Changed

Benchmarking by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/319
CoLA integration by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/370
Vector Fields Notebook by @ivanshalashilin in https://github.com/JaxGaussianProcesses/GPJax/pull/341

New Contributors

@ivanshalashilin made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/341

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6.9...v0.7.0

What's Changed

Update README.md by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/250
Bump linkify-it-py from 2.0.0 to 2.0.2 by @dependabot in https://github.com/JaxGaussianProcesses/GPJax/pull/251
Bump JamesIves/github-pages-deploy-action from 4.1.6 to 4.4.1 by @dependabot in https://github.com/JaxGaussianProcesses/GPJax/pull/249
Bump actions/checkout from 2.3.1 to 3.5.2 by @dependabot in https://github.com/JaxGaussianProcesses/GPJax/pull/248
Bump actions/setup-node from 1 to 3 by @dependabot in https://github.com/JaxGaussianProcesses/GPJax/pull/247
Fix latex rending + minor typos. by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/257
Update gpu guide to point to JAX installation guide. by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/258
Tiny doc improvement by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/264
Autogen code by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/265
Update CI by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/266
Add sharp bits doc by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/267
Add isotropy test by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/271
Update sharp_bits.md by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/275
Fix doc build by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/281
Bugfix powered_exponential.py by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/279
Static typing fixes by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/285
WIP by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/289
Abstract integrator by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/283
Add cite functionality by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/300
Add integrator/likelihoods doc by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/296
Smoke testing by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/307
Docstring tester by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/317
changed schedule peak_value to 1e-2 for the svgp notebook so it does not give nans by @stefanosele in https://github.com/JaxGaussianProcesses/GPJax/pull/324
Bugfix in BasisFunctionComputation by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/326
Decouple kernel computation class initialisation from kernel by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/328
Update contribution documentation by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/329
Add introductory kernel notebook and change style file path in notebooks by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/331
Add BO notebook by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/335
Fixed Polar GP example by @trsav in https://github.com/JaxGaussianProcesses/GPJax/pull/339
Merge in main by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/346
Precision check feature by @trsav in https://github.com/JaxGaussianProcesses/GPJax/pull/347
Fix objectives tests by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/348
Categorical kernel by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/345
Clarify docs by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/353
Support for missing values using masked dataset by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/340
Bump jax and jaxlib versions by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/366
Fix bug in zero mean function and add test by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/358
Benchmarking by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/319
CoLA integration by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/370
Vector Fields Notebook by @ivanshalashilin in https://github.com/JaxGaussianProcesses/GPJax/pull/341

New Contributors

@dependabot made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/251
@stefanosele made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/324
@trsav made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/339
@ivanshalashilin made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/341

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6...v0.7.0

Scientific Software - Peer-reviewed - Python
Published by thomaspinder almost 3 years ago

GPJax - v0.6.9

What's Changed

Clarify docs by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/353
Support for missing values using masked dataset by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/340
Bump jax and jaxlib versions by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/366
Fix bug in zero mean function and add test by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/358

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6.8...v0.6.9

Scientific Software - Peer-reviewed - Python
Published by thomaspinder almost 3 years ago

GPJax - v0.6.8

What's Changed

Decouple kernel computation class initialisation from kernel by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/328
Update contribution documentation by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/329
Add introductory kernel notebook and change style file path in notebooks by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/331
Add BO notebook by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/335
Fixed Polar GP example by @trsav in https://github.com/JaxGaussianProcesses/GPJax/pull/339
Merge in main by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/346
Precision check feature by @trsav in https://github.com/JaxGaussianProcesses/GPJax/pull/347
Fix objectives tests by @Thomas-Christie in https://github.com/JaxGaussianProcesses/GPJax/pull/348
Categorical kernel by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/345

New Contributors

@Thomas-Christie made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/329
@trsav made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/339

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6.7...v0.6.8

Scientific Software - Peer-reviewed - Python
Published by thomaspinder almost 3 years ago

GPJax - v0.6.7

What's Changed

Add integrator/likelihoods doc by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/296
Smoke testing by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/307
Docstring tester by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/317
changed schedule peak_value to 1e-2 for the svgp notebook so it does not give nans by @stefanosele in https://github.com/JaxGaussianProcesses/GPJax/pull/324
Bugfix in BasisFunctionComputation by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/326

New Contributors

@stefanosele made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/324

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6.4...v0.6.7

Scientific Software - Peer-reviewed - Python
Published by thomaspinder almost 3 years ago

GPJax - v0.6.4

What's Changed

Add cite functionality by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/300

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6.3...v0.6.4

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 3 years ago

GPJax - v0.6.3

What's Changed

Static typing fixes by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/285
WIP by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/289
Abstract integrator by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/283

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6.2...v0.6.3

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 3 years ago

GPJax - v0.6.2

What's Changed

Fix latex rending + minor typos. by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/257
Update gpu guide to point to JAX installation guide. by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/258
Tiny doc improvement by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/264
Autogen code by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/265
Update CI by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/266
Add sharp bits doc by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/267
Add isotropy test by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/271
Update sharp_bits.md by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/275
Fix doc build by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/281
Bugfix powered_exponential.py by @ingmarschuster in https://github.com/JaxGaussianProcesses/GPJax/pull/279

New Contributors

@ingmarschuster made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/279

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.6.1...v0.6.2

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 3 years ago

GPJax - v0.6

What's Changed

Rectify predictive interval in examples/regression.pct.py by @patel-zeel in https://github.com/JaxGaussianProcesses/GPJax/pull/186
typo fixes by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/187
pyspelling by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/188
Correct key handling in examples by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/191
Jaxkern merge by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/197
Jaxlinop merge by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/196
Docs pytree by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/211
Cleanup by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/205
Update README by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/220
Rff sampler by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/195
Add minimal pytree checks for linops. (Better testing needed in future). by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/222
Add pytree tests for gps (tests still need improving). by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/223
Add minimal pytree tests for variational (tests need improving). by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/224
Add tests for kernels and likelihoods by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/225
Add save/load fns by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/228
Spatial modelling example with decoupled sampling by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/234
Introduce beartype & fix types by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/230
pre-commit setup & code changes by @st-- in https://github.com/JaxGaussianProcesses/GPJax/pull/241
Poisson likelihood by @frazane in https://github.com/JaxGaussianProcesses/GPJax/pull/231
Tidy up RFF and extra tests/formatting by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/243
Arccosine kernel by @henrymoss in https://github.com/JaxGaussianProcesses/GPJax/pull/245
Add static field to base, update tests to run on 3.11, fix 3.11 compatibility by @daniel-dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/246
Revamp docs by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/233
V0.6 by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/212

New Contributors

@henrymoss made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/195

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.5.9...v0.6

Scientific Software - Peer-reviewed - Python
Published by thomaspinder about 3 years ago

GPJax - v0.5.9

What's Changed

Update jaxkern dep by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/182

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.5.8...v0.5.9

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 3 years ago

GPJax - v0.5.8

Address bug fix StochasticVI variational expectation. (@Daniel-Dodd).

Scientific Software - Peer-reviewed - Python
Published by daniel-dodd over 3 years ago

GPJax - v0.5.7

Overview:

Removed Chex as a direct GPJax dependancy (@Daniel-Dodd).
Depreciated parameter initialisation (@Daniel-Dodd).
Depreciated gpjax.parameters to JaxUtils.parameters (@thomaspinder).
Depreciated gpjax.config to JaxUtils.config (@Daniel-Dodd).
Deprecated gpjax.utils to JaxUtils.dict (@Daniel-Dodd).
Addressed issues with documentation build and checks for new PRs (@thomaspinder).

Remove `Chex` import and dataclasses

Issue: #157 Fixed: via #176, @Daniel-Dodd Details: Chex has been removed in as a direct dependancy of GPJax.

Note Distrax depends on Chex, so you still need the relevant version of Chex installed to use GPJax.

This means it is recommend that users no longer use Chex's @dataclass decorator, to define objects. Instead, we advise users inherit from abstract types provided in GPJax (e.g., AbstractGP) or should inherit the JaxUtils.PyTree module, to ensure their object is registered as a JAX PyTree.

This decision to remove Chex was given to provide great flexibility of defining new classes, and mitigating pain points with class inheritance issues (resorting use to use mixin classes).

⚠️ WARNING: Given GPJax's objects are no longer Chex.dataclasses note the keyword only argument convention for initialising objects has been removed - users should be careful on the order of their inputs.

Parameter initialisation:

Issue: #172 Fixed: #178, @Daniel-Dodd Details:

To initialise default parameters you should call/define init_param instead of _initialise_params. The latter is being depreciated and will be removed in v0.6.

Example (1):

```python import jaxkern as jk import gpjax as gpx import jax.random as jr prior = gpx.Prior(kernel = jk.RBF())

OLD DO NOT USE:

key = jr.PRNGKey(123) params = prior.initialiseparams(key)

NEW WAY:

key = jr.PRNGKey(123) params = prior.init_params(key) ```

Example (2):

```python from gpjax.likelihoods import AbstractLikelihood from jax.random import KeyArray from typing import Dict

class Poisson(AbstractLikelihood): # Define init, ect as usual.

def init(self, ...) -> None: ....

# Define your default params via the `init_params` method instead of the old `_initialise_params`
def init_params(self, key: KeyArray) -> Dict:
      ....

```

Documentation fix build and add checks

Issue: #170, #169 Fixed: #171 (@thomaspinder). Details:

The docs now builds and checks are in place to ensure successful builds on new PRs made to the master branch.

Note the docs are currently built using a GitHub workflow, while unit tests are run via CircleCI workflows.

Scientific Software - Peer-reviewed - Python
Published by daniel-dodd over 3 years ago

GPJax - V0.5.6

What's Changed

Stabilize covariance learning with FillScaleTriL and update config behaviour by @patel-zeel in https://github.com/JaxGaussianProcesses/GPJax/pull/163
Circleci by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/168
Versioneer by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/166
Address Jax/Jaxlib v0.4.x compatibility, incorporate CircleCI testing workflows, incorporate versioneer. by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/164

New Contributors

@patel-zeel made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/163

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.5.5...v0.5.6

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 3 years ago

GPJax - v0.5.5

Depreciate gpjax.Dataset and gpjax.kernels. These objects will be removed in v0.6.0. @thomaspinder

Scientific Software - Peer-reviewed - Python
Published by daniel-dodd over 3 years ago

GPJax - v0.5.4

Implementation of new kernels and a backend move to using a PyTree in place of a Chex dataclass.

What's Changed

More kernels by @thomaspinder in https://github.com/JaxGaussianProcesses/GPJax/pull/148

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.5.2...v0.5.4

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 3 years ago

GPJax - v0.5.2

What's Changed

Fix typos in introduction doc. by @jondeaton in https://github.com/JaxGaussianProcesses/GPJax/pull/151
Change MLL to probability transition kernel only. by @Daniel-Dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/153
Incorporate JaxLinOp with GPJax by @Daniel-Dodd in https://github.com/JaxGaussianProcesses/GPJax/pull/154

New Contributors

@jondeaton made their first contribution in https://github.com/JaxGaussianProcesses/GPJax/pull/151

Full Changelog: https://github.com/JaxGaussianProcesses/GPJax/compare/v0.5.1...v0.5.2

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 3 years ago

GPJax - v0.5.1

Fix stability in Matérn kernels.

Scientific Software - Peer-reviewed - Python
Published by daniel-dodd over 3 years ago

GPJax - v0.5

What's Changed

Transformations by @Daniel-Dodd in https://github.com/thomaspinder/GPJax/pull/109
Natgrads by @Daniel-Dodd in https://github.com/thomaspinder/GPJax/pull/90
Fix bug in Matern12 kernel by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/119
Intro to GP notebooks by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/117
Add verbose option. by @Daniel-Dodd in https://github.com/thomaspinder/GPJax/pull/116
Numpyro by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/122
Distrax reversion by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/125
Kernel compute by @Daniel-Dodd in https://github.com/thomaspinder/GPJax/pull/120
Prevent f64 default by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/129
Update w/ Dan comments by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/130
Cleanup reqs by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/131
Update docs by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/137
Improve readability and add comments. by @Daniel-Dodd in https://github.com/thomaspinder/GPJax/pull/138
Move params to the first slot of each function, class, etc. by @Daniel-Dodd in https://github.com/thomaspinder/GPJax/pull/139
V0.5 update by @thomaspinder in https://github.com/thomaspinder/GPJax/pull/123

Full Changelog: https://github.com/thomaspinder/GPJax/compare/v0.4.13...v0.5

Scientific Software - Peer-reviewed - Python
Published by thomaspinder over 3 years ago