Recovered quickstart section in html, added tutorials placeholder and...

Recovered quickstart section in html, added tutorials placeholder and implemented rudimentary integration between doxygen and sphinx (dependecy on breathe sphinx extension)

docs/source/conf.py

@@ -27,6 +27,7 @@ sys.path.append(os.path.abspath('../../moose-examples/tutorials/ChemicalBistable
 sys.path.append(os.path.abspath('../../moose-examples/tutorials/ExcInhNet'))
 sys.path.append(os.path.abspath('../../moose-examples/neuroml/lobster_pyloric'))
 sys.path.append(os.path.abspath('../../moose-examples/tutorials/ExcInhNetCaPlasticity'))
+sys.path.append('../../docproj/ext/breathe/')
 
 # -- General configuration -----------------------------------------------------
 
@@ -41,6 +42,7 @@ extensions = ['sphinx.ext.autodoc',
               'sphinx.ext.autosummary',
               'sphinx.ext.todo',
               'sphinx.ext.viewcode',
+              'breathe'
 		]
 
 todo_include_todos = True
@@ -110,6 +112,8 @@ todo_include_todos = True
 # A list of ignored prefixes for module index sorting.
 #modindex_common_prefix = []
 
+sys.setrecursionlimit(2000)
+
 # -- Options for HTML output ---------------------------------------------------
 
 # The theme to use for HTML and HTML Help pages.  See the documentation for
@@ -286,4 +290,14 @@ import subprocess, os
 read_the_docs_build = os.environ.get('READTHEDOCS', None) == 'True'
 
 if read_the_docs_build:
-    subprocess.call('cd ../../doxygen; echo HELLO......................; doxygen Doxyfile', shell=True)
+    subprocess.call('cd ../../source/doxygen; echo HELLO......................; doxygen Doxyfile', shell=True)
+
+#####################Breathe##########################
+
+breathe_projects = {
+    'src':'doxygen/cpp/xml'
+    }
+
+breathe_default_project = 'index'
+
+

docs/source/index.rst

@@ -27,6 +27,7 @@ MOOSE is a simulation environment, not just a numerical engine: It provides data
 
    /install/index_install
    /user/py/quickstart/index_qs
+   /user/py/tutorials/index_tut
    /user/py/cookbook/index_ckbk
    /user/py/graphics/index_graphics
    /user/py/references/index_ref

docs/source/user/py/quickstart/index_qs.rst

+.. MOOSE documentation master file, created by
+   sphinx-quickstart on Tue Jul  1 19:05:47 2014.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Quick Start
+===========
+
+.. toctree::
+   :maxdepth: 2
+
+   qs_GUI
+   moose_quickstart
+   demos
+   classes_demos

docs/source/user/py/quickstart/moose_quickstart.rst

@@ -34,7 +34,7 @@ Contents:
    :maxdepth: 2
    :numbered:
 
-   moose_quickstart
+
 
 Indices and tables
 ==================

docs/source/user/py/tutorials/index_tut.rst

+Tutorials
+=========
+
+Insert Tutorials here.