[DOCS] multiple tweaks.

docs/conf.py

@@ -44,7 +44,7 @@ master_doc = 'index'
 
 # General information about the project.
 project = u'bedtools'
-copyright = u'2012'
+copyright = u'2009 - 2013, Aaron R. Quinlan'
 
 # The version info for the project you're documenting, acts as replacement for
 # |version| and |release|, also used in various other places throughout the
@@ -135,7 +135,9 @@ html_last_updated_fmt = '%b %d, %Y'
 #html_use_smartypants = True
 
 # Custom sidebar templates, maps document names to template names.
-#html_sidebars = {}
+html_sidebars = {
+    'index': ['sidebar-intro.html', 'sourcelink.html', 'searchbox.html']
+}
 
 # Additional templates that should be rendered to pages, maps page names to
 # template names.

docs/content/tools/merge.rst

@@ -21,6 +21,7 @@ file into a single feature which spans all of the combined features.
 .. seealso::
 
     :doc:`../tools/cluster`
+    :doc:`../tools/complement`
     
 
 ==========================================================================

docs/templates/sidebar-intro.html

+<p>
+   Bedtools is a fast, flexible toolset for genome arithmetic.
+</p>
+<h3>Bedtools links</h3>
+<ul>
+  <li><a target="_blank" href="https://github.com/arq5x/bedtools/issues">Issue Tracker</a></li>
+  <li><a target="_blank" href="https://github.com/arq5x/bedtools">Source @ GitHub</a></li>
+  <li><a target="_blank" href="https://bedtools.googlecode.com">Releases @ Google Code</a></li>
+  <li><a target="_blank" href="http://groups.google.com/group/bedtools-discuss">Mailing list @ Google Groups</a></li>
+  <li><a target="_blank" href="http://quinlanlab.org">Quinlan lab @ UVa</a></li>
+</ul>
+
+<h3>Sources</h3>
+<p><a href="https://github.com/arq5x/bedtools">Browse source @ GitHub</a>.</p>
+
+<h3>Releases</h3>
+<ul>
+    <li><a href="http://bedtools.googlecode.com/files/BEDTools.v2.17.0.tar.gz">2.17.0 (current)</a></li>
+    <li><a href="http://bedtools.googlecode.com/files/BEDTools.v2.16.2.tar.gz">2.16.2</a></li>
+</ul>
+