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89 commits

Author SHA1 Message Date
James Hensman
56a4bc4e21 an assortment of fixes 2013-06-05 14:52:37 +01:00
James Hensman
d43f4c911c preferred optimiser is now scg bydefault 2013-06-05 13:58:04 +01:00
James Hensman
dea4359b4e changed the behaviour of checkgrad 
checkgrad usd to check the passed string (for name matching) against the
list of _get_param_names(). Then it would index along
_get_param_names_transformed()!

this led to inconsistensies when fixed or tied variables were used,
which screwed up the ordering of the variable names.

We now match against _get_param_names_transformed().
 2013-06-05 12:08:33 +01:00
James Hensman
6196ed794e fixed printing, some example 2013-06-04 17:54:36 +01:00
James Hensman
6d64559f1f re-merged. only RA's errors (probit?) remain 2013-06-04 17:38:05 +01:00
Max Zwiessele
c4cd93cd17 MERGE 2013-06-04 17:27:59 +01:00
Max Zwiessele
c7ac1ed9d8 domains added and class names in priors capitalized 2013-06-04 17:21:56 +01:00
James Hensman
e29e5624f5 Merge branch 'devel' of github.com:SheffieldML/GPy into devel 2013-06-04 17:19:44 +01:00
James Hensman
edae1032c7 tests are now passing 2013-06-04 17:19:33 +01:00
Max Zwiessele
3546650d15 added domain matching in set_prior 2013-06-04 17:12:17 +01:00
Alan Saul
f403e5b0b7 Merge branch 'devel' of github.com:SheffieldML/GPy into devel 2013-06-04 16:05:44 +01:00
Alan Saul
1302c46ace Broken whilst unlinking GP and sparse_GP, kern not being imported 2013-06-04 16:05:33 +01:00
James Hensman
aa8b75d0c5 regular expressions now match rather than search 2013-06-04 14:36:17 +01:00
Max Zwiessele
4eebf99bfb REVERT a53690ab7f, flapack back substitued in 2013-05-31 12:09:11 +01:00
Max Zwiessele
43cd5ad50b Merge branch 'devel' of github.com:SheffieldML/GPy into devel 2013-05-30 10:37:20 +01:00
Max Zwiessele
a53690ab7f DeprecationWarning: Substituded all (\!) flapack occ. with lapack (scipy said so) 2013-05-30 10:37:03 +01:00
James Hensman
d461f5f9bf sparse_GP now has a separate predict function 
GP and sparse_GP used t share a predict fumction. Since we'd like to
propagate uncertainty in predictions, sparse_GP.predict needs to accept
X_new_variance.
 2013-05-29 13:22:25 +01:00
James Hensman
93439e8a8e implemented inverse Gamma prior 2013-05-20 11:03:35 +01:00
James Hensman
8f75f6d66b tried to eliminate the regexp overflow error for large models 2013-05-07 18:50:13 +01:00
Neil Lawrence
7ffcefc511 Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel 
Conflicts:
	GPy/examples/dimensionality_reduction.py
 2013-05-05 08:01:47 +01:00
Neil Lawrence
b6bac53da8 Minor changes 2013-05-05 07:59:07 +01:00
Max Zwiessele
914bdc73d8 added absolute difference check to gradcheck 2013-05-03 13:35:41 +01:00
James Hensman
350c69799d fixed a tie-bug for ND 2013-05-02 10:59:19 +01:00
James Hensman
db3646c3f3 Merge branch 'devel' into new_constraints 
Conflicts:
	GPy/core/model.py
	GPy/core/parameterised.py
 2013-05-01 12:07:35 +01:00
James Hensman
83510e7515 first attemot at the new constraint framework 2013-04-30 11:25:57 +01:00
Neil Lawrence
71114eef8c Merge branch 'devel' of https://github.com/SheffieldML/GPy into devel 2013-04-29 21:45:42 +01:00
Neil Lawrence
33521f6763 Unification of the visualize object hierarchy and standardization of the click and move behaviour of lvm and lvm_dimselect. Set colours of input sensitivity histogram to red for left (port) and green for right (starboard). 2013-04-29 21:45:15 +01:00
Max Zwiessele
aaaa1b5251 model re compilation added 2013-04-29 16:21:38 +01:00
Max Zwiessele
992a35b614 baysian gplvm and example changes 2013-04-24 16:38:40 +01:00
Max Zwiessele
000cd5dbb8 new getters and setters for self.params, added m['var'] getter and setter 2013-04-24 11:16:33 +01:00
Max Zwiessele
7bc76b0ef9 Pull branch 'devel' of github.com:SheffieldML/GPy into devel 2013-04-24 10:10:10 +01:00
Max Zwiessele
70beeb5fe9 added m['ard'] gives all parameters matching 'ard', as well as setting m['ard'] = x to set all mrd parameters 2013-04-24 10:08:41 +01:00
James Hensman
43b9eacd8a re-enabled a previous bugfix which was lost in a merge 2013-04-23 17:11:04 +01:00
Max Zwiessele
0c8b83454f Revert "merge devel mrd" 
This reverts commit 3f625a9347, reversing
changes made to dc6faeb303.
 2013-04-23 14:02:15 +01:00
James Hensman
2205c333b2 fixed a weird regular expression bug in ensure_def_constraints 2013-04-23 12:19:41 +01:00
Nicolo Fusi
7c63d7e346 removed useless _set_params() 2013-04-15 16:27:56 +01:00
Nicolo Fusi
f6879ef768 Merge branch 'master' into devel 2013-04-10 16:55:27 +01:00
James Hensman
4aca883df3 weaved some rbf code 2013-04-10 15:50:31 +01:00
Nicolo Fusi
60dfc34e9b big merge 2013-04-10 12:23:23 +01:00
Nicolo Fusi
807e85123e Merge branch 'master' of github.com:SheffieldML/GPy 2013-04-10 11:54:55 +01:00
James Hensman
fd0b172e81 various work on BGPLVM oil demo 2013-04-10 09:28:58 +01:00
Neil Lawrence
fce4dd7fde Further edits on visualization code for faces example. 2013-04-02 02:20:53 +02:00
Ricardo Andrade
c72d2b99d9 print iteration number 2013-03-27 13:52:51 +00:00
Ricardo Andrade
8dd33615c1 pseudo EM algorithm for EP and maybe Laplace. 2013-03-22 18:38:24 +00:00
Nicolò Fusi
8ab1cfaf65 changes in GPLVM plotting 2013-03-21 11:05:17 +00:00
Nicolo Fusi
c44493077a made parallel optimize_restart responsive to ctrl+c 2013-03-18 14:31:26 +00:00
Nicolo Fusi
4d355d823f removed log_likelihood_gradients_transformed, now everything is done in the objective functions 2013-03-11 10:45:24 +00:00
Nicolo Fusi
d9b03044ac moved randomize() in a more proper place 2013-02-25 12:21:25 +00:00
Nicolò Fusi
1705ecce91 optimize_restarts() is now parallel (load-balanced). It also mantains compatibility with the verbose and robust options 2013-02-24 13:23:46 +00:00
Nicolò Fusi
66f25769bc added target_param option to checkgrad(), removed unused function parameter 2013-02-20 10:13:03 +00:00