diff --git a/docs/_static/labibi.css b/docs/_static/labibi.css
new file mode 100644
index 0000000000000000000000000000000000000000..8a8e60075dcab01ea74e86ad634218d05f4505dc
--- /dev/null
+++ b/docs/_static/labibi.css
@@ -0,0 +1,54 @@
+@import url('rtd.css');
+
+/* Styles for floating Edit on GitHub box */
+#editor-trap {
+ margin: 1em;
+ padding: 1em;
+ border: 1px solid black;
+ box-shadow: 0 0 3px black;
+ width: 200px;
+
+ background: #fefabc;
+ position: fixed;
+ bottom: 1em;
+ left: 1em;
+ font-size: 60%;
+ text-align: left;
+ z-index: 2;
+
+ -moz-transform: rotate(-4deg);
+ -webkit-transform: rotate(-4deg);
+ -o-transform: rotate(-4deg);
+ -ms-transform: rotate(-4deg);
+ transform: rotate(-4deg);
+ box-shadow: 0px 4px 6px #333;
+ -moz-box-shadow: 0px 4px 6px #333;
+ -webkit-box-shadow: 0px 4px 6px #333;
+
+
+ cursor: pointer;
+}
+
+#editor-trap h3 {
+ margin: 0 0 0.5em 0;
+ padding: 0;
+ background: transparent;
+}
+
+#editor-trap ol {
+ margin: 0;
+ padding: 0 0 0 2em;
+}
+
+/* Hide trick */
+
+#editor-trap.toggled > * {
+ display: none;
+}
+
+
+#editor-trap.toggled > h3 {
+ display: block;
+}
+
+
diff --git a/docs/_static/labibi.js b/docs/_static/labibi.js
new file mode 100644
index 0000000000000000000000000000000000000000..e548131803055f95fae3b79c0de1649ac808b62f
--- /dev/null
+++ b/docs/_static/labibi.js
@@ -0,0 +1,30 @@
+// Store editor pop-up help state in localStorage
+// so it does not re-pop-up itself between page loads.
+// Do not even to pretend to support IE gracefully.
+(function($) {
+
+ $(document).ready(function() {
+ var box = $("#editor-trap");
+ var klass = "toggled";
+ var storageKey = "toggled";
+
+ function toggle() {
+ box.toggleClass(klass);
+ // Store the toggle status in local storage as "has value string" or null
+ window.localStorage.setItem(storageKey, box.hasClass(klass) ? "toggled" : "not-toggled");
+ }
+
+ box.click(toggle);
+
+ // Check the persistent state of the editor pop-up
+ // Note that localStorage does not necessarily support boolean values (ugh!)
+ // http://stackoverflow.com/questions/3263161/cannot-set-boolean-values-in-localstorage
+ var v = window.localStorage.getItem(storageKey);
+ if(v == "toggled" || !v) {
+ box.addClass(klass);
+ }
+
+ });
+
+})(jQuery);
+
diff --git a/docs/conf.py b/docs/conf.py
index abe8103d26c3b164ae109b6d6bd8061e63aef3bc..da9695911fcc4da119a0533df7ac5c95c854a2ce 100755
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -95,6 +95,7 @@ pygments_style = 'sphinx'
# The theme to use for HTML and HTML Help pages. See the documentation for
# a list of builtin themes.
html_theme = 'rtd'
+#html_style = 'labibi.css'
# Theme options are theme-specific and customize the look and feel of a theme
# further. For a list of options available for each theme, see the
@@ -120,6 +121,13 @@ html_logo = 'bedtools.png'
# pixels large.
html_favicon = 'bedtools.png'
+# 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,
+# so a file named "default.css" will overwrite the builtin "default.css".
+html_static_path = ['_static']
+html_style = 'labibi.css'
+
+
# 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,
# so a file named "default.css" will overwrite the builtin "default.css".
diff --git a/docs/templates/page.html b/docs/templates/page.html
new file mode 100644
index 0000000000000000000000000000000000000000..19c6597610159e6c85a337bb5209feb830862c01
--- /dev/null
+++ b/docs/templates/page.html
@@ -0,0 +1,140 @@
+{% extends "!page.html" %}
+
+{% set google_analytics_id = 'UA-37270821-1' %}
+{% set disqus_shortname = 'bedtoolsdocs' %}
+
+{# note, currently these must be set... #}
+{% set github_base_account = 'ar5qx' %}
+{% set github_project = 'bedtools' %}
+
+{##################################################}
+{# for plone-derived "edit me" & Google analytics #}
+{##################################################}
+
+{% block footer %}
+{{ super() }}
+
+{# Add plone-derived 'edit me' sticky note #}
+<div id="editor-trap">
+ <h3>Edit this document!</h3>
+
+ <p>
+ This file can be edited directly through the Web. Anyone can
+ update and fix errors in this document with few clicks --
+ no downloads needed.
+ <p>
+
+ <ol>
+
+ <li>
+ Go to
+ <a href="https://github.com/{{ github_base_account }}/{{ github_project }}/blob/master/{{ pagename }}.rst">
+ {{ title }}
+ </a> on GitHub.
+ </li>
+
+ <li>
+ <b>Edit</b> files using GitHub's text editor in your web browser (see the 'Edit' tab on the top right of the file)
+ </li>
+
+ <li>
+ Fill in the <b>Commit message</b> text box at the bottom of the page describing <i>why</i>
+ you made the changes. Press the <b>Propose file change</b> button next to it when done.
+ </li>
+
+ <li>
+ Then click <b>Send a pull request</b>.
+ </li>
+
+ <li>
+ Your changes are now queued for review under the project's <a href="https://github.com/{{ github_base_account }}/{{ github_project }}/pulls">Pull requests</a> tab on GitHub!
+ </li>
+ </ol>
+
+ <p>
+ For an introduction to the documentation format please see <a href="http://docutils.sourceforge.net/docs/user/rst/quickstart.html">the reST primer</a>.
+ </p>
+
+ </div>
+
+<script type="text/javascript">
+
+ var _gaq = _gaq || [];
+ _gaq.push(['_setAccount', {{ google_analytics_id }}]);
+ _gaq.push(['_trackPageview']);
+
+ (function() {
+ var ga = document.createElement('script'); ga.type = 'text/javascript'; ga.async = true;
+ ga.src = ('https:' == document.location.protocol ? 'https://ssl' : 'http://www') + '.google-analytics.com/ga.js';
+ var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
+ })();
+
+</script>
+
+{% endblock %}
+
+{#########################}
+{# for disqus commenting #}
+{#########################}
+
+{% macro comments() %}
+
+<div id="disqus_thread"></div>
+<script type="text/javascript">
+ /* * * CONFIGURATION VARIABLES: EDIT BEFORE PASTING INTO YOUR WEBPAGE * * */
+ var disqus_shortname = '{{ disqus_shortname }}'; // required: replace example with your forum shortname
+
+ /* * * DON'T EDIT BELOW THIS LINE * * */
+ (function() {
+ var dsq = document.createElement('script'); dsq.type = 'text/javascript'; dsq.async = true;
+ dsq.src = 'http://' + disqus_shortname + '.disqus.com/embed.js';
+ (document.getElementsByTagName('head')[0] || document.getElementsByTagName('body')[0]).appendChild(dsq);
+ })();
+</script>
+<noscript>Please enable JavaScript to view the <a href="http://disqus.com/?ref_noscript">comments powered by Disqus.</a></noscript>
+<a href="http://disqus.com" class="dsq-brlink">comments powered by <span class="logo-disqus">Disqus</span></a>
+
+{% endmacro %}
+
+{% block extrahead %}
+
+{% if github_base_account %}
+<script src="{{ pathto('_static/labibi.js', 1) }}"></script>
+{% else %}
+<style type="text/css">
+<!-- github-based editing disabled; set github_base_account
+ and github_project -->
+#editor-trap.toggled {
+ display: none;
+}
+</style>
+{% endif %}
+
+{% if google_analytics_id %}
+<script type="text/javascript">
+ var _gaq = _gaq || [];
+ _gaq.push(['_setAccount', '']);
+ _gaq.push(['_trackPageview']);
+
+ (function() {
+ var ga = document.createElement('script'); ga.type = 'text/javascript'; ga.async = true;
+ ga.src = ('https:' == document.location.protocol ? 'https://ssl' : 'http://www') + '.google-analytics.com/ga.js';
+ var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
+ })();
+</script>
+{% else %}
+<!-- Google Analytics JS is disabled; set google_analytics_id -->
+{% endif %}
+{% endblock %}
+
+{%- block body %}
+ {{ super() }}
+
+{% if disqus_shortname %}
+ {{ comments() }}
+{% else %}
+<!-- disqus commenting disabled; set disqus_shortname -->
+{% endif %}
+
+{%- endblock %}
+