Big changes in Eigen documentation:

- Organize the documentation into "chapters".
  - Each chapter include many documentation pages, reference pages organized as modules, and a quick reference page.
  - The "Chapters" tree is created using the defgroup/ingroup mechanism, even for the documentation pages (i.e., .dox files for which I added an \eigenManualPage macro that we can switch between \page or \defgroup ).
  - Add a "General topics" entry for all pages that do not fit well in the previous "chapters".
  - The highlevel struture is managed by a new eigendoxy_layout.xml file.
- remove the "index" and quite useless pages (namespace list, class hierarchy, member list, file list, etc.)
- add the javascript search-engine.
- add the "treeview" panel.
- remove \tableofcontents (replace them by a custom \eigenAutoToc macro to be able to easily re-enable if needed).
- add javascript to automatically generate a TOC from the h1/h2 tags of the current page, and put the TOC in the left side panel.
- overload various javascript function generated by doxygen to:
  - remove the root of the treeview
  - remove links to section/subsection from the treeview
  - automatically expand the "Chapters" section
  - automatically expand the current section
  - adjust the height of the treeview to take into account the TOC
- always use the default .css file, eigendoxy.css now only includes our modifications
- use Doxyfile to specify our logo
- remove cross references to unsupported modules (temporarily)

doc/C08_TutorialGeometry.dox

@@ -1,14 +1,13 @@
 namespace Eigen {
 
-/** \page TutorialGeometry Tutorial page 8 - Geometry
-    \ingroup Tutorial
+/** \eigenManualPage TutorialGeometry Geometry
 
 \li \b Previous: \ref TutorialReductionsVisitorsBroadcasting
 \li \b Next: \ref TutorialSparse
 
 In this tutorial, we will briefly introduce the many possibilities offered by the \ref Geometry_Module "geometry module", namely 2D and 3D rotations and projective or affine transformations.
 
-\tableofcontents
+\eigenAutoToc
 
 Eigen's Geometry module provides two different kinds of geometric transformations:
   - Abstract transformations, such as rotations (represented by \ref AngleAxis "angle and axis" or by a \ref Quaternion "quaternion"), \ref Translation "translations", \ref Scaling "scalings". These transformations are NOT represented as matrices, but you can nevertheless mix them with matrices and vectors in expressions, and convert them to matrices if you wish.