update documentation

README.md

 # Astec Tutorial
 
+This repository contains tutorial data for astec suite (see
+[gitlab.inria.fr/astec/astec](https://gitlab.inria.fr/astec/astecl).
+
+Tutorial documentation can be found at [astec.gitlabpages.inria.fr/astec-tutorial/](https://astec.gitlabpages.inria.fr/astec-tutorial/).

doc/source/astec_tutorial.rst

@@ -113,7 +113,7 @@ done with |fusion|
 * The variable ``EN`` is the prefix after which the result fusion
   images will be named. 
 * The variables ``begin`` and ``end`` set respectively the
-    first and the last index of the input time points to be processed.
+  first and the last index of the input time points to be processed.
 * The variable ``DIR_RAWDATA`` is the directory containing the raw
   data.
 * The variables ``DIR_LEFTCAM_STACKZERO``,

doc/source/conf.py

@@ -68,7 +68,7 @@ rst_prolog = """
 # The theme to use for HTML and HTML Help pages.  See the documentation for
 # a list of builtin themes.
 #
-html_theme = 'alabaster'
+html_theme = 'sphinxdoc'
 
 # Add any paths that contain custom static files (such as style sheets) here,
 # relative to this directory. They are copied after the builtin static files,

doc/source/index.rst

-==============
-Astec tutorial
-==============
+============================
+Welcome to astec's tutorial!
+============================
 
 
 ASTEC, for **Adaptive Segmentation and Tracking of Embryonic Cells**, was first developed during L. Guignard PhD thesis :cite:p:`guignard:tel-01278725`.
@@ -14,5 +14,6 @@ Its development has been pursued, and it was used to process 3D+t movies acquire
    
    installation.rst
    astec_tutorial.rst
+   publications.rst
 
 

doc/source/publications.rst

+Publications & bibliography
+===========================
+
+.. bibliography::
+   :all:
+