Last sphinx modifications

git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_cythonize@1380 636b058d-ea47-450e-bf9e-a15bfbe3eedb

Former-commit-id: 7c7315dcf3fb211451948b67ceba499b6b7e98ca

5 files changed, 95 insertions, 20 deletions

diff --git a/src/cython/doc/source/alpha_complex_ref.rst b/src/cython/doc/source/alpha_complex_ref.rst
new file mode 100644
index 00000000..ab81eee0
--- /dev/null
+++ b/src/cython/doc/source/alpha_complex_ref.rst
@@ -0,0 +1,9 @@
+Alpha complex reference manual
+##############################
+
+.. autoclass:: gudhi.AlphaComplex
+   :members:
+   :undoc-members:
+   :show-inheritance:
+
+   .. automethod:: gudhi.AlphaComplex.__init__
diff --git a/src/cython/doc/source/alpha_complex_user.rst b/src/cython/doc/source/alpha_complex_user.rst
new file mode 100644
index 00000000..3b445d13
--- /dev/null
+++ b/src/cython/doc/source/alpha_complex_user.rst
@@ -0,0 +1,8 @@
+Alpha complex user manual
+#########################
+
+blablabla
+
+.. image:: img/alpha_complex_representation.png
+   :align: center
+
diff --git a/src/cython/doc/source/cubical_complex_ref.rst b/src/cython/doc/source/cubical_complex_ref.rst
new file mode 100644
index 00000000..84aa4223
--- /dev/null
+++ b/src/cython/doc/source/cubical_complex_ref.rst
@@ -0,0 +1,9 @@
+Cubical complex reference manual
+################################
+
+.. autoclass:: gudhi.CubicalComplex
+   :members:
+   :undoc-members:
+   :show-inheritance:
+
+   .. automethod:: gudhi.CubicalComplex.__init__
diff --git a/src/cython/doc/source/cubical_complex_user.rst b/src/cython/doc/source/cubical_complex_user.rst
new file mode 100644
index 00000000..7ade4b86
--- /dev/null
+++ b/src/cython/doc/source/cubical_complex_user.rst
@@ -0,0 +1,8 @@
+Cubical complex user manual
+###########################
+
+blablabla
+
+.. image:: img/Cubical_complex_representation.png
+   :align: center
+
diff --git a/src/cython/doc/source/index.rst b/src/cython/doc/source/index.rst
index 7dfea239..d08b465c 100644
--- a/src/cython/doc/source/index.rst
+++ b/src/cython/doc/source/index.rst
@@ -38,27 +38,68 @@ Data structures
 Alpha complex
 =============
 
-.. image:: img/alpha_complex_representation.png
-   :align: center
-
-Alpha_complex is a simplicial complex constructed from the finite cells of a
-Delaunay Triangulation.
-
-The filtration value of each simplex is computed as the square of the
-circumradius of the simplex if the circumsphere is empty (the simplex is then
-said to be Gabriel), and as the minimum of the filtration values of the
-codimension 1 cofaces that make it not Gabriel otherwise. All simplices that
-have a filtration value strictly greater than a given alpha squared value are
-not inserted into the complex.
-
-This package requires having CGAL version 4.7 or higher (4.8.1 is advised for
-better perfomances).
+=====================================  =====================================  =====================================
+:Author: Vincent Rouvreau              :Introduced in: GUDHI PYTHON 1.4.0     :Copyright: GPL v3
+=====================================  =====================================  =====================================
+
++-------------------------------------------+----------------------------------------------------------------------+
+| .. image::                                | Alpha_complex is a simplicial complex constructed from the finite    |
+|      img/alpha_complex_representation.png | cells of a Delaunay Triangulation.                                   |
+|                                           |                                                                      |
+|                                           | The filtration value of each simplex is computed as the square of the|
+|                                           | circumradius of the simplex if the circumsphere is empty (the simplex|
+|                                           | is then said to be Gabriel), and as the minimum of the filtration    |
+|                                           | values of the codimension 1 cofaces that make it not Gabriel         |
+|                                           | otherwise. All simplices that have a filtration value strictly       |
+|                                           | greater than a given alpha squared value are not inserted into the   |
+|                                           | complex.                                                             |
+|                                           |                                                                      |
+|                                           | This package requires having CGAL version 4.7 or higher (4.8.1 is    |
+|                                           | advised for better perfomances).                                     |
++-------------------------------------------+----------------------------------------------------------------------+
+| :doc:`alpha_complex_user`                 | :doc:`alpha_complex_ref`                                             |
++-------------------------------------------+----------------------------------------------------------------------+
+
+Cubical complex
+===============
+
+=====================================  =====================================  =====================================
+:Author: Pawel Dlotko                  :Introduced in: GUDHI PYTHON 1.4.0     :Copyright: GPL v3
+=====================================  =====================================  =====================================
+
++---------------------------------------------+----------------------------------------------------------------------+
+| .. image::                                  | The cubical complex is an example of a structured complex useful in  |
+|      img/Cubical_complex_representation.png | computational mathematics (specially rigorous numerics) and image    |
+|                                             | analysis.                                                            |
++---------------------------------------------+----------------------------------------------------------------------+
+| :doc:`cubical_complex_user`                 | :doc:`cubical_complex_ref`                                           |
++---------------------------------------------+----------------------------------------------------------------------+
+
+Simplex tree
+============
+
+=====================================  =====================================  =====================================
+:Author: Clément Maria                 :Introduced in: GUDHI PYTHON 1.4.0     :Copyright: GPL v3
+=====================================  =====================================  =====================================
+
+Witness complex
+===============
+
+=====================================  =====================================  =====================================
+:Author: Siargey Kachanovich           :Introduced in: GUDHI PYTHON 1.4.0     :Copyright: GPL v3
+=====================================  =====================================  =====================================
+
+
+Toolbox
+*******
+
+Persistence cohomology
+======================
+
+=====================================  =====================================  =====================================
+:Author: Clément Maria                 :Introduced in: GUDHI PYTHON 1.4.0     :Copyright: GPL v3
+=====================================  =====================================  =====================================
 
-* :ref:`alphacomplex`
 
 
-.. automodule:: gudhi
-   :members:
-   :undoc-members:
-   :show-inheritance: