https://github.com/GPflow/GPflow

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Revision Author Date Message Commit Date
816a41f update models and parse 02 February 2020, 21:14 UTC
f9ba316 make exp 31 January 2020, 15:53 UTC
9b69953 getting coupled model to work 24 January 2020, 19:53 UTC
da7f944 Merge branch 'va/gpf/conditional_kernel' into va/additive_models 20 January 2020, 15:39 UTC
81543cc make conditioning output a parameter 20 January 2020, 15:39 UTC
1563488 update model and demos 20 January 2020, 15:36 UTC
87e465e Merge branch 'va/gpf/conditional_kernel' into va/additive_models 20 January 2020, 14:05 UTC
fac31a7 refactoring + add tests 20 January 2020, 14:01 UTC
cef02df update demo 20 January 2020, 13:49 UTC
f77e9b9 Merge branch 'va/gpf/conditional_kernel' into va/additive_models 20 January 2020, 12:17 UTC
291ae6c add conditioned mean function 20 January 2020, 12:17 UTC
cf8b279 Merge branch 'va/gpf/conditional_kernel' into va/additive_models 20 January 2020, 11:38 UTC
5dc31b8 add test, rename variables, add to __init__ 20 January 2020, 11:23 UTC
6c2ea68 update 17 January 2020, 17:08 UTC
17f7a50 update multiplicative model 17 January 2020, 14:41 UTC
c1b4631 changing interface 17 January 2020, 11:06 UTC
9121382 introducing the conditioned kernel 17 January 2020, 11:01 UTC
03a4e29 Fix issue with tf.cast() and implicit dtype conversion (#1211) 16 January 2020, 12:24 UTC
36a0853 Link GPflow 2 upgrade guide from intro.ipynb and README.md (#1210) 15 January 2020, 11:10 UTC
fcd3b00 Add validation to Parameter.assign() to increase robustness of transforms (#1198) 15 January 2020, 11:08 UTC
cd55917 Skip tests more selectively (#1194) 15 January 2020, 11:01 UTC
4a3bd56 Add GPflow 2 upgrade guide (#1199) 14 January 2020, 14:42 UTC
04f9e12 adding svgps model 10 January 2020, 18:39 UTC
701ef03 adding demos 10 January 2020, 18:37 UTC
55e15d5 add CNY model 10 January 2020, 18:36 UTC
b17df8b reinstate project links in README.md that disappeared when changing develop to 2.0 10 January 2020, 16:48 UTC
7c2711f TensorFlow 2.1 compatibility, and identify as gpflow.Parameter in repr() to ease debugging (#1201) * Adds is_tensor_like property (returns True) to gpflow.Parameter to be compatible with TensorFlow 2.1. * Changes gpflow.Parameter.__repr__ to identify itself as a gpflow object, not a tf.Tensor, to ease debugging and interactive use. 10 January 2020, 15:55 UTC
c67e4ac demo for svgps 09 January 2020, 18:50 UTC
20b1b01 adding init 09 January 2020, 18:49 UTC
6a455db dynamic shape evaluation instead of static shapes (#1181) Allows gpflow2 to work better with tf.function() when static shapes are unknown (e.g. when minibatching). Closes #1179 Co-authored-by: marcoadurno <marco.adurno@gmail.com> 07 January 2020, 21:15 UTC
fb66fb5 Improve Parameter.assign docstring (#1193) Closes #1191 07 January 2020, 21:12 UTC
ec54849 Update intro_to_gpflow2.ipynb (#1196) fix minor typo 07 January 2020, 21:09 UTC
b0e09ee Update SGPR_notes.ipynb (#1186) 18 December 2019, 16:33 UTC
426f6d2 Add jit flag to gpflow.optimizers.Scipy (#1190) * Add jit flag to gpflow.optimizers.Scipy that wraps objective and gradient evaluation in tf.function() 17 December 2019, 13:28 UTC
552074a fix bug in Kernel.on_separate_dims (#1178) * fix bug in Kernel.on_separate_dims * regression test 09 December 2019, 14:24 UTC
ef5a7ca Don't mention dockerfile in docs (#1174) Closes #620 04 December 2019, 15:00 UTC
8939a38 Clean up kernel interface (#1170) * make kernel interface consistent (uses X, X2 everywhere now) * add ABC metaclass to Kernel baseclass 04 December 2019, 14:51 UTC
beebbca add links to v1.5 documentation to README.md (#1171) 04 December 2019, 12:27 UTC
438a3ed add prior to print_summary (#1168) * refactor tabulate_module_summary * add representation of prior to tabulate_module_summary (fixes #1117) 03 December 2019, 16:15 UTC
b1a6e69 GPflow notebooks - final copyedits (#1165) cleanup, typos, revert to US spelling etc. 29 November 2019, 11:41 UTC
a492858 Fix printing test (#1166) 26 November 2019, 23:29 UTC
bd1eb7c Assign lower bound directly to likelihood variance. (#1162) 26 November 2019, 20:55 UTC
1b9073d Fixes #1080 by casting tensorflow dtypes to numpy dtypes (#1164) 26 November 2019, 20:54 UTC
4654676 ELBO and log marginal likelhood of the SVGP has one data argument (#1163) 26 November 2019, 20:54 UTC
7bf3bf7 minor docstring improvement (#1161) 21 November 2019, 17:42 UTC
89a0bfb quick fix of documentation mathematics (#1155) * quick fix of documentation mathematics * Apply suggestions from code review much clearer Co-Authored-By: st-- <st--@users.noreply.github.com> 21 November 2019, 16:48 UTC
6a1abd4 Porting the generalized periodic kernel (#1158) Turns the Periodic kernel into a wrapper-kernel that takes any Stationary kernel as an argument `base` and turns it into a periodic version. Backwards-incompatible but more flexible and less code! 21 November 2019, 16:09 UTC
9cdb2a2 Add config option for positive bijector + re-introduce positive lower bound (#1148) 21 November 2019, 14:33 UTC
3af7b8e Stabilise upper bound of `SGPR`. (#1159) 19 November 2019, 11:15 UTC
59ef09c Bug fix in mcmc.ipynb (#1157) 16 November 2019, 13:13 UTC
52e3f61 ARD and Stationaries Refactor (#1088) 16 November 2019, 11:28 UTC
78238bd Prepare release 2.0.0-rc1 (#1153) 14 November 2019, 15:23 UTC
473e9bc Update contributors (#1152) 14 November 2019, 12:23 UTC
5ec3260 Update README (#1151) 14 November 2019, 12:22 UTC
624ed39 Gaussian process with neural network notebook (#1149) 14 November 2019, 11:54 UTC
32b76b7 Update CircleCI config (#1150) 14 November 2019, 11:05 UTC
a241dd3 Missing `full_output_cov` in VGP and GPLVM parameter prevents us from calling, `predict_f_samples` from the base class.. (#1147) 13 November 2019, 23:25 UTC
24b5733 Migrate MCMC notebook to gpflow2.0 (#1100) Migrate MCMC notebook to gpflow 2 using tensorflow probabilities. Changes required a few changes across the rest of the codebase, outside of the notebook. * small change to leaf printing function (fix bug, which was preventing printing of composite kernels) * parameters and trainable_parameters now return tuples, not generators, like tf implementation of variables, trainable_variables * tfp.distributions now work with different dtypes (by wrapping of parameters), so now play nicely with gpflow. 13 November 2019, 12:27 UTC
046b107 Create autodocumentation of API for GPFflow. (#1120) The script generate_rst.py creates a folder `gpflow` which contains all the rst for the autogeneration using sphinx. Also added is type checking to the documentation and css and logo for the docs. 13 November 2019, 10:36 UTC
1a38796 Updated contributors (#1128) 12 November 2019, 15:24 UTC
0cadb9e Remove persistent tape fixing #1142 (#1145) 12 November 2019, 14:24 UTC
f282e01 Minor fix in README.md (#1143) 12 November 2019, 13:06 UTC
ff339f8 Updated mixture_density_network notebook (#1141) 11 November 2019, 15:09 UTC
4cf768f Update notebook tests (#1140) 11 November 2019, 12:38 UTC
732f114 Deprecate neg_log_marginal_likelihood (#1139) 09 November 2019, 19:23 UTC
96940dd Computation of the gradient must be outside of the GradientTape 09 November 2019, 18:10 UTC
c13c49a Refactor config with a dataclass (#1135) 09 November 2019, 13:40 UTC
157aa4f Update custom mean function (#1134) 08 November 2019, 17:16 UTC
637534a Fix a bug for slice cov when tf.function(autograph=False) applied. (#1136) 08 November 2019, 14:05 UTC
d05f429 Use experimental_ref when using tf.Variable as key in Dicts (#1132) 08 November 2019, 13:41 UTC
015975e Fig importing bug in changepoints kernel (#1133) 07 November 2019, 14:01 UTC
bc68c52 Move positive and triangular to bijectors utilities (#1131) 07 November 2019, 11:47 UTC
76f6427 ChangePoints kernel (#1094) 06 November 2019, 23:21 UTC
1aa9d03 Resolve merge conflicts 06 November 2019, 23:03 UTC
95e4ca5 Move utility function to_default_* to utility module 06 November 2019, 22:59 UTC
ab054e0 Clear announcement about GPflow 2.0 (#1130) 06 November 2019, 11:10 UTC
1c80b70 Announcement 03 November 2019, 23:38 UTC
458a345 Announcement 03 November 2019, 23:36 UTC
f070a8b Unblacklist some notebooks so tests can run and delete the monitoring (#1121) 31 October 2019, 11:36 UTC
86b0ee6 Fix natural gradient notebook (#1126) 31 October 2019, 11:29 UTC
3dad746 Multiple assign (#1125) 30 October 2019, 16:55 UTC
7b59483 Fix set trainable method (#1124) 30 October 2019, 13:27 UTC
d2ad129 Fix training function, which refers to model in outside scope. (#1123) 30 October 2019, 11:04 UTC
b1e7b32 Removed warnings due to weird escape characters. (#1122) 29 October 2019, 11:25 UTC
a6f3043 Merge branch 'develop-2.0' of github.com:GPflow/GPflow into develop-2.0 27 October 2019, 17:21 UTC
5d6336f GPflow 2.0 notebook update: SGPR upper bound (#1116) This PR updates the understanding/upper_bound.ipynb to work in gpflow2. It fixes the upper_bound code in gpflow/models/sgpr.py and restores the original (tighter) test tolerance that had both been changed by commit 45efebc The plots don't quite match up to what was in the GPflow1 version (nor does the tight bound in the 1-inducing-point example at the end), but otherwise this seems to work. 27 October 2019, 16:46 UTC
9b5bf76 GPflow 2.0 notebook update: SGPR upper bound (#1116) 27 October 2019, 16:41 UTC
f650c7b GPflow 2.0 notebook update: understanding/models.ipynb (#1118) 27 October 2019, 16:31 UTC
d048736 Change GPflow 2.0 scipy default method to L-BFGS-B (as in GPflow 1.0) (#1112) Explicitly sets the default optimization method for Scipy() to L-BFGS-B (as in gpflow1), instead of letting scipy.minimize() figure it out. This resulted in BFGS, which may be too aggressive when encountering complex optimization surfaces, so L-BFGS-B may be a more sensible default. 27 October 2019, 16:28 UTC
ca40b13 Natural Gradient for GPflow 2.0 (#1109) 25 October 2019, 09:34 UTC
b6cc953 Notebook fixed - broke in earlier PR (#1115) 23 October 2019, 15:21 UTC
cd3559f Set summary format is now fixed (#1114) * Some changes in convolutional notebook * Default summary format now loaded in `print_summary` instead of tabulate_module_summary * Default summary format now loaded in `print_summary` instead of tabulate_module_summary * Default summary format now loaded in `print_summary` instead of tabulate_module_summary 23 October 2019, 12:30 UTC
330074a GPflow 2.0 notebook update: FITC vs VFE (#1104) * WIP * make it run * rerun notebook * rerun notebook after merging in bugfix * Call step_callback through scipy.minimize's callback procedure (at the end of each step); previous behaviour was to call step_callback at each evaluation of objective function * adjust callback signature * changes to make it work under gpflow2: method=L-BFGS-B, tol=1e-11. increase callback frequency * rerun notebook * remove from notebook test blacklist * fix Scipy 23 October 2019, 10:16 UTC
6e43fec Change step_callback behaviour of Scipy optimizer in gpflow2 to behave as in gpflow1 (#1111) Changes behaviour of step_callback so that the callback only gets called once per optimisation step, not once per objective function evaluation. Makes gpflow2's Scipy() behave more like gpflow1's ScipyOptimizer()/monitoring. * Call step_callback through scipy.minimize's callback procedure (at the end of each step); previous behaviour was to call step_callback at each evaluation of objective function * split off from unpack_tensors (now stateless) the new assign_tensors (assigns to variables) * change callback_func to pass variables and their current values to step_callback, not assigning/computing loss/gradients * fix type signature * Improve docstring 22 October 2019, 16:54 UTC
a186ca5 Traverse function for DAG (tf.Module) structures (#1108) * Rewrite get_leaf_components and deepcopy_components with traverse Write/update tests for both * Tape should compute gradients outside context * Explanation of the test * Some changes in convolutional notebook * Update tests/test_deepcopy.py Co-Authored-By: st-- <st--@users.noreply.github.com> * Reorganising recursion on traverse * Update tests/test_deepcopy.py Co-Authored-By: st-- <st--@users.noreply.github.com> * Update tests/test_deepcopy.py Co-Authored-By: st-- <st--@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Update gpflow/utilities/utilities.py Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> * Separating deepcopy_components from clear_cache_bijectors * Remove ListWrapper and _DictWrapper Co-Authored-By: Eric Hammy <6815729+condnsdmatters@users.noreply.github.com> 22 October 2019, 16:38 UTC
51b2465 [GPflow2.0] notebook update: sanity_check.ipynb (#1078) 22 October 2019, 16:32 UTC
a813515 GPflow2.0 notebook update: coregionalisation.ipynb (#1072) * explicitly set method="L-BFGS-B" and rerun 22 October 2019, 13:13 UTC
b0ddc6d Notebook for Variational Fourier Features (#1062) Adds a notebook that demonstrates how to add inter-domain inducing variables to GPflow without having to touch the core code base, at the example of variational Fourier features (Hensman, Durrande, Solin, JMLR 18 (2018)). 21 October 2019, 14:19 UTC
33ded03 Ensure all tf_probability distributions take the correct dtype parameters (#1103) 18 October 2019, 15:06 UTC
deb4508 Fix hidden bug in SGPR (#1106) 1. Fix hidden bug in SGPR 2. Add the sgpr.compute_qu method from gpflow1 1. [Bug]. SGPR likelihoods were previously using full rank matrices instead of diagonal ones in both upper bound and likelihood calculation. Ie `Kdiag` was not "diag". This error was being masked by the intentional deactivation of tests comparing to the SGPR to the GPR, and what appears to be a hack to make tests working on the upper bound case. 2. [Migration]. Fixing the above broke another test, originally used for sgpr.compute_qu. The method sgpr.compute_qu had not been migrated from gpflow1, and a test that was meant to check it had been patched up to pass, erroneously. After speaking to @markvdw, concluded this method is useful, in particular to compare to SVGP model. The test has been patched up and the method ported to gpflow2. 17 October 2019, 14:46 UTC
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