added some documentation and example files

doc/GPy.core.rst

@@ -0,0 +1,35 @@
+core Package
+============
+
+:mod:`core` Package
+-------------------
+
+.. automodule:: GPy.core
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`model` Module
+-------------------
+
+.. automodule:: GPy.core.model
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`parameterised` Module
+---------------------------
+
+.. automodule:: GPy.core.parameterised
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`priors` Module
+--------------------
+
+.. automodule:: GPy.core.priors
+    :members:
+    :undoc-members:
+    :show-inheritance:
+

doc/GPy.inference.rst

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+inference Package
+=================
+
+:mod:`Expectation_Propagation` Module
+-------------------------------------
+
+.. automodule:: GPy.inference.Expectation_Propagation
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`likelihoods` Module
+-------------------------
+
+.. automodule:: GPy.inference.likelihoods
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`optimization` Module
+--------------------------
+
+.. automodule:: GPy.inference.optimization
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`samplers` Module
+----------------------
+
+.. automodule:: GPy.inference.samplers
+    :members:
+    :undoc-members:
+    :show-inheritance:
+

doc/GPy.kern.rst

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+kern Package
+============
+
+:mod:`kern` Package
+-------------------
+
+.. automodule:: GPy.kern
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`Brownian` Module
+----------------------
+
+.. automodule:: GPy.kern.Brownian
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`Matern32` Module
+----------------------
+
+.. automodule:: GPy.kern.Matern32
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`Matern52` Module
+----------------------
+
+.. automodule:: GPy.kern.Matern52
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`bias` Module
+------------------
+
+.. automodule:: GPy.kern.bias
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`constructors` Module
+--------------------------
+
+.. automodule:: GPy.kern.constructors
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`exponential` Module
+-------------------------
+
+.. automodule:: GPy.kern.exponential
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`finite_dimensional` Module
+--------------------------------
+
+.. automodule:: GPy.kern.finite_dimensional
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`kern` Module
+------------------
+
+.. automodule:: GPy.kern.kern
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`kernpart` Module
+----------------------
+
+.. automodule:: GPy.kern.kernpart
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`linear` Module
+--------------------
+
+.. automodule:: GPy.kern.linear
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`linear_ARD` Module
+------------------------
+
+.. automodule:: GPy.kern.linear_ARD
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`rbf-testing` Module
+-------------------------
+
+.. automodule:: GPy.kern.rbf-testing
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`rbf` Module
+-----------------
+
+.. automodule:: GPy.kern.rbf
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`spline` Module
+--------------------
+
+.. automodule:: GPy.kern.spline
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`sympykern` Module
+-----------------------
+
+.. automodule:: GPy.kern.sympykern
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`white` Module
+-------------------
+
+.. automodule:: GPy.kern.white
+    :members:
+    :undoc-members:
+    :show-inheritance:
+

doc/GPy.models.rst

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+models Package
+==============
+
+:mod:`models` Package
+---------------------
+
+.. automodule:: GPy.models
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`GPLVM` Module
+-------------------
+
+.. automodule:: GPy.models.GPLVM
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`GP_EP` Module
+-------------------
+
+.. automodule:: GPy.models.GP_EP
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`GP_regression` Module
+---------------------------
+
+.. automodule:: GPy.models.GP_regression
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`generalized_FITC` Module
+------------------------------
+
+.. automodule:: GPy.models.generalized_FITC
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`sparse_GPLVM` Module
+--------------------------
+
+.. automodule:: GPy.models.sparse_GPLVM
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`sparse_GP_regression` Module
+----------------------------------
+
+.. automodule:: GPy.models.sparse_GP_regression
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`uncollapsed_sparse_GP` Module
+-----------------------------------
+
+.. automodule:: GPy.models.uncollapsed_sparse_GP
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`warped_GP` Module
+-----------------------
+
+.. automodule:: GPy.models.warped_GP
+    :members:
+    :undoc-members:
+    :show-inheritance:
+

doc/GPy.rst

@@ -0,0 +1,22 @@
+GPy Package
+===========
+
+:mod:`GPy` Package
+------------------
+
+.. automodule:: GPy.__init__
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+Subpackages
+-----------
+
+.. toctree::
+
+    GPy.core
+    GPy.inference
+    GPy.kern
+    GPy.models
+    GPy.util
+

doc/GPy.util.rst

@@ -0,0 +1,67 @@
+util Package
+============
+
+:mod:`util` Package
+-------------------
+
+.. automodule:: GPy.util
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`Tango` Module
+-------------------
+
+.. automodule:: GPy.util.Tango
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`datasets` Module
+----------------------
+
+.. automodule:: GPy.util.datasets
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`linalg` Module
+--------------------
+
+.. automodule:: GPy.util.linalg
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`misc` Module
+------------------
+
+.. automodule:: GPy.util.misc
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`plot` Module
+------------------
+
+.. automodule:: GPy.util.plot
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`squashers` Module
+-----------------------
+
+.. automodule:: GPy.util.squashers
+    :members:
+    :undoc-members:
+    :show-inheritance:
+
+:mod:`warping_functions` Module
+-------------------------------
+
+.. automodule:: GPy.util.warping_functions
+    :members:
+    :undoc-members:
+    :show-inheritance:
+

doc/modules.rst

@@ -0,0 +1,7 @@
+GPy
+===
+
+.. toctree::
+   :maxdepth: 4
+
+   GPy