Skip to content

Commit 1b279f1

Browse files
orbeckstorbeckst
committed
Deploy MDAnalysisData to github.com/MDAnalysis/MDAnalysisData.git:gh-pages
1 parent e5784e0 commit 1b279f1

115 files changed

Lines changed: 13390 additions & 5353 deletions

File tree

Some content is hidden

Large Commits have some content hidden by default. Use the searchbox below for content that may be hidden.

‎.buildinfo‎

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -1,4 +1,4 @@
11
# Sphinx build info version 1
22
# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
3-
config: 9ebbbdd7422349856bbc9649af0dee0c
3+
config: f65d6d6d7bed086012f15e9267dad41a
44
tags: 645f666f9bcd5a90fca523b33c5a78b7

‎CG_fiber.html‎

Lines changed: 223 additions & 112 deletions
Original file line numberDiff line numberDiff line change
@@ -1,39 +1,187 @@
11

2+
23
<!DOCTYPE html>
4+
<html class="writer-html5" lang="en" >
5+
<head>
6+
<meta charset="utf-8">
7+
8+
<meta name="viewport" content="width=device-width, initial-scale=1.0">
9+
10+
<title>CG fiber dataset &mdash; MDAnalysisData 0.8.0+5.g56f9ae0 documentation</title>
11+
312

4-
<html xmlns="http://www.w3.org/1999/xhtml">
5-
<head>
6-
<meta charset="utf-8" />
7-
<title>CG fiber dataset &#8212; MDAnalysisData 0.8.0 documentation</title>
8-
<link rel="stylesheet" href="_static/alabaster.css" type="text/css" />
9-
<link rel="stylesheet" href="_static/pygments.css" type="text/css" />
10-
<script type="text/javascript" id="documentation_options" data-url_root="./" src="_static/documentation_options.js"></script>
11-
<script type="text/javascript" src="_static/jquery.js"></script>
12-
<script type="text/javascript" src="_static/underscore.js"></script>
13-
<script type="text/javascript" src="_static/doctools.js"></script>
14-
<script type="text/javascript" src="_static/language_data.js"></script>
13+
14+
<link rel="stylesheet" href="_static/css/theme.css" type="text/css" />
15+
<link rel="stylesheet" href="_static/pygments.css" type="text/css" />
16+
<link rel="stylesheet" href="_static/custom.css" type="text/css" />
17+
18+
19+
20+
<link rel="shortcut icon" href="_static/mdanalysis-logo.ico"/>
21+
22+
23+
24+
25+
26+
<!--[if lt IE 9]>
27+
<script src="_static/js/html5shiv.min.js"></script>
28+
<![endif]-->
29+
30+
31+
<script type="text/javascript" id="documentation_options" data-url_root="./" src="_static/documentation_options.js"></script>
32+
<script src="_static/jquery.js"></script>
33+
<script src="_static/underscore.js"></script>
34+
<script src="_static/doctools.js"></script>
35+
<script src="_static/language_data.js"></script>
36+
37+
<script type="text/javascript" src="_static/js/theme.js"></script>
38+
39+
1540
<link rel="search" type="application/opensearchdescription+xml"
16-
title="Search within MDAnalysisData 0.8.0 documentation"
41+
title="Search within MDAnalysisData 0.8.0+5.g56f9ae0 documentation"
1742
href="_static/opensearch.xml"/>
18-
<link rel="shortcut icon" href="_static/mdanalysis-logo.ico"/>
1943
<link rel="index" title="Index" href="genindex.html" />
2044
<link rel="search" title="Search" href="search.html" />
21-
<link rel="prev" title="Vesicles datasets" href="vesicles.html" />
45+
<link rel="prev" title="Vesicles datasets" href="vesicles.html" />
46+
</head>
47+
48+
<body class="wy-body-for-nav">
49+
2250

23-
<link rel="stylesheet" href="_static/custom.css" type="text/css" />
24-
25-
26-
<meta name="viewport" content="width=device-width, initial-scale=0.9, maximum-scale=0.9" />
51+
<div class="wy-grid-for-nav">
52+
53+
<nav data-toggle="wy-nav-shift" class="wy-nav-side">
54+
<div class="wy-side-scroll">
55+
<div class="wy-side-nav-search" style="background: white" >
56+
57+
58+
59+
<a href="index.html">
60+
61+
62+
63+
64+
<img src="_static/MDAnalysisData-logo.png" class="logo" alt="Logo"/>
65+
66+
</a>
67+
68+
69+
70+
71+
<div class="version">
72+
0.8
73+
</div>
74+
75+
76+
77+
78+
<div role="search">
79+
<form id="rtd-search-form" class="wy-form" action="search.html" method="get">
80+
<input type="text" name="q" placeholder="Search docs" />
81+
<input type="hidden" name="check_keywords" value="yes" />
82+
<input type="hidden" name="area" value="default" />
83+
</form>
84+
</div>
85+
86+
87+
</div>
88+
89+
90+
<div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="main navigation">
91+
92+
93+
94+
95+
96+
97+
<p class="caption"><span class="caption-text">Overview</span></p>
98+
<ul>
99+
<li class="toctree-l1"><a class="reference internal" href="install.html">Installing</a></li>
100+
<li class="toctree-l1"><a class="reference internal" href="usage.html">Usage</a></li>
101+
<li class="toctree-l1"><a class="reference internal" href="helpers.html">Helpers</a></li>
102+
<li class="toctree-l1"><a class="reference internal" href="credits.html">Credits</a></li>
103+
</ul>
104+
<p class="caption"><span class="caption-text">Datasets</span></p>
105+
<ul class="current">
106+
<li class="toctree-l1"><a class="reference internal" href="adk_equilibrium.html">AdK equilibrium dataset</a></li>
107+
<li class="toctree-l1"><a class="reference internal" href="adk_transitions.html">AdK transitions datasets</a></li>
108+
<li class="toctree-l1"><a class="reference internal" href="PEG_1chain.html">PEG polymer dataset</a></li>
109+
<li class="toctree-l1"><a class="reference internal" href="ifabp_water.html">I-FABP dataset</a></li>
110+
<li class="toctree-l1"><a class="reference internal" href="nhaa_equilibrium.html">NhaA equilibrium dataset</a></li>
111+
<li class="toctree-l1"><a class="reference internal" href="yiip_equilibrium.html">YiiP equilibrium dataset</a></li>
112+
<li class="toctree-l1"><a class="reference internal" href="membrane_peptide.html">Membrane peptide dataset</a></li>
113+
<li class="toctree-l1"><a class="reference internal" href="vesicles.html">Vesicles datasets</a></li>
114+
<li class="toctree-l1 current"><a class="current reference internal" href="#">CG fiber dataset</a><ul>
115+
<li class="toctree-l2"><a class="reference internal" href="#id1">CG fiber dataset</a><ul>
116+
<li class="toctree-l3"><a class="reference internal" href="#notes">Notes</a></li>
117+
</ul>
118+
</li>
119+
</ul>
120+
</li>
121+
</ul>
122+
123+
124+
125+
</div>
126+
127+
</div>
128+
</nav>
129+
130+
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap">
131+
132+
133+
<nav class="wy-nav-top" aria-label="top navigation">
134+
135+
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
136+
<a href="index.html">MDAnalysisData</a>
137+
138+
</nav>
139+
140+
141+
<div class="wy-nav-content">
142+
143+
<div class="rst-content">
144+
145+
27146

28-
</head><body>
29-
30147

31-
<div class="document">
32-
<div class="documentwrapper">
33-
<div class="bodywrapper">
148+
149+
150+
151+
152+
153+
154+
155+
156+
157+
158+
159+
160+
161+
<div role="navigation" aria-label="breadcrumbs navigation">
162+
163+
<ul class="wy-breadcrumbs">
164+
165+
<li><a href="index.html" class="icon icon-home"></a> &raquo;</li>
166+
167+
<li>CG fiber dataset</li>
168+
169+
170+
<li class="wy-breadcrumbs-aside">
171+
172+
173+
<a href="_sources/CG_fiber.rst.txt" rel="nofollow"> View page source</a>
34174

175+
176+
</li>
177+
178+
</ul>
35179

36-
<div class="body" role="main">
180+
181+
<hr/>
182+
</div>
183+
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
184+
<div itemprop="articleBody">
37185

38186
<div class="section" id="module-MDAnalysisData.CG_fiber">
39187
<span id="cg-fiber-dataset"></span><span id="cg-fiber"></span><h1>CG fiber dataset<a class="headerlink" href="#module-MDAnalysisData.CG_fiber" title="Permalink to this headline"></a></h1>
@@ -77,17 +225,17 @@ <h3>Notes<a class="headerlink" href="#notes" title="Permalink to this headline">
77225
</dd>
78226
</dl>
79227
</div></blockquote>
80-
<dl class="function">
228+
<dl class="py function">
81229
<dt id="MDAnalysisData.CG_fiber.fetch_CG_fiber">
82-
<code class="sig-prename descclassname">MDAnalysisData.CG_fiber.</code><code class="sig-name descname">fetch_CG_fiber</code><span class="sig-paren">(</span><em class="sig-param">data_home=None</em>, <em class="sig-param">download_if_missing=True</em><span class="sig-paren">)</span><a class="reference internal" href="_modules/MDAnalysisData/CG_fiber.html#fetch_CG_fiber"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#MDAnalysisData.CG_fiber.fetch_CG_fiber" title="Permalink to this definition"></a></dt>
230+
<code class="sig-prename descclassname">MDAnalysisData.CG_fiber.</code><code class="sig-name descname">fetch_CG_fiber</code><span class="sig-paren">(</span><em class="sig-param"><span class="n">data_home</span><span class="o">=</span><span class="default_value">None</span></em>, <em class="sig-param"><span class="n">download_if_missing</span><span class="o">=</span><span class="default_value">True</span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/MDAnalysisData/CG_fiber.html#fetch_CG_fiber"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#MDAnalysisData.CG_fiber.fetch_CG_fiber" title="Permalink to this definition"></a></dt>
83231
<dd><p>Load the CG fiber self-assembly trajectory</p>
84232
<dl class="field-list simple">
85233
<dt class="field-odd">Parameters</dt>
86234
<dd class="field-odd"><ul class="simple">
87235
<li><p><strong>data_home</strong> (<em>optional</em><em>, </em><em>default: None</em>) – Specify another download and cache folder for the datasets. By default
88236
all MDAnalysisData data is stored in ‘~/MDAnalysis_data’ subfolders.
89237
This dataset is stored in <code class="docutils literal notranslate"><span class="pre">&lt;data_home&gt;/CG_fiber</span></code>.</p></li>
90-
<li><p><strong>download_if_missing</strong> (<em>optional</em><em>, </em><em>default=True</em>) – If <code class="docutils literal notranslate"><span class="pre">False</span></code>, raise a <a class="reference external" href="https://docs.python.org/3/library/exceptions.html#IOError" title="(in Python v3.7)"><code class="xref py py-exc docutils literal notranslate"><span class="pre">IOError</span></code></a> if the data is not locally available
238+
<li><p><strong>download_if_missing</strong> (<em>optional</em><em>, </em><em>default=True</em>) – If <code class="docutils literal notranslate"><span class="pre">False</span></code>, raise a <a class="reference external" href="https://docs.python.org/3/library/exceptions.html#IOError" title="(in Python v3.8)"><code class="xref py py-exc docutils literal notranslate"><span class="pre">IOError</span></code></a> if the data is not locally available
91239
instead of trying to download the data from the source site.</p></li>
92240
</ul>
93241
</dd>
@@ -109,102 +257,65 @@ <h3>Notes<a class="headerlink" href="#notes" title="Permalink to this headline">
109257
</div>
110258

111259

260+
</div>
261+
112262
</div>
113-
114-
</div>
115-
</div>
116-
<div class="sphinxsidebar" role="navigation" aria-label="main navigation">
117-
<div class="sphinxsidebarwrapper">
118-
<p class="logo">
119-
<a href="index.html">
120-
<img class="logo" src="_static/logos/MDAnalysisData-logo.png" alt="Logo"/>
121-
122-
<h1 class="logo logo-name">MDAnalysisData</h1>
123-
124-
</a>
125-
</p>
126-
127-
128-
129-
<p class="blurb">Biomolecular simulation datasets</p>
130-
131-
132-
133-
134-
135-
136-
263+
<footer>
264+
265+
<div class="rst-footer-buttons" role="navigation" aria-label="footer navigation">
266+
267+
268+
<a href="vesicles.html" class="btn btn-neutral float-left" title="Vesicles datasets" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a>
269+
270+
</div>
271+
137272

138-
<h3>Navigation</h3>
139-
<p class="caption"><span class="caption-text">Overview</span></p>
140-
<ul>
141-
<li class="toctree-l1"><a class="reference internal" href="install.html">Installing</a></li>
142-
<li class="toctree-l1"><a class="reference internal" href="usage.html">Usage</a></li>
143-
<li class="toctree-l1"><a class="reference internal" href="helpers.html">Helpers</a></li>
144-
<li class="toctree-l1"><a class="reference internal" href="credits.html">Credits</a></li>
145-
</ul>
146-
<p class="caption"><span class="caption-text">Datasets</span></p>
147-
<ul class="current">
148-
<li class="toctree-l1"><a class="reference internal" href="adk_equilibrium.html">AdK equilibrium dataset</a></li>
149-
<li class="toctree-l1"><a class="reference internal" href="adk_transitions.html">AdK transitions datasets</a></li>
150-
<li class="toctree-l1"><a class="reference internal" href="PEG_1chain.html">PEG polymer dataset</a></li>
151-
<li class="toctree-l1"><a class="reference internal" href="ifabp_water.html">I-FABP dataset</a></li>
152-
<li class="toctree-l1"><a class="reference internal" href="nhaa_equilibrium.html">NhaA equilibrium dataset</a></li>
153-
<li class="toctree-l1"><a class="reference internal" href="yiip_equilibrium.html">YiiP equilibrium dataset</a></li>
154-
<li class="toctree-l1"><a class="reference internal" href="membrane_peptide.html">Membrane peptide dataset</a></li>
155-
<li class="toctree-l1"><a class="reference internal" href="vesicles.html">Vesicles datasets</a></li>
156-
<li class="toctree-l1 current"><a class="current reference internal" href="#">CG fiber dataset</a></li>
157-
</ul>
273+
<hr/>
158274

275+
<div role="contentinfo">
276+
<p>
277+
278+
&copy; Copyright 2018-2020, Oliver Beckstein, Shujie Fan, Micaela Matta, Richard J. Gowers, Lily Wang
159279

160-
<hr />
161-
<ul>
280+
</p>
281+
</div>
162282

163-
<li class="toctree-l1"><a href="https://www.mdanalysis.org/">MDAnalysis</a></li>
164283

165-
<li class="toctree-l1"><a href="https://alchemtest.readthedocs.io/">alchemtest</a></li>
166284

167-
</ul>
168-
<div class="relations">
169-
<h3>Related Topics</h3>
170-
<ul>
171-
<li><a href="index.html">Documentation overview</a><ul>
172-
<li>Previous: <a href="vesicles.html" title="previous chapter">Vesicles datasets</a></li>
173-
</ul></li>
174-
</ul>
175-
</div>
176-
<div id="searchbox" style="display: none" role="search">
177-
<h3 id="searchlabel">Quick search</h3>
178-
<div class="searchformwrapper">
179-
<form class="search" action="search.html" method="get">
180-
<input type="text" name="q" aria-labelledby="searchlabel" />
181-
<input type="submit" value="Go" />
182-
</form>
183-
</div>
285+
Built with <a href="http://sphinx-doc.org/">Sphinx</a> using a
286+
287+
<a href="https://github.com/rtfd/sphinx_rtd_theme">theme</a>
288+
289+
provided by <a href="https://readthedocs.org">Read the Docs</a>.
290+
291+
<div class="footer"><p>Please see
292+
our <a href="https://www.mdanalysis.org/pages/privacy/">Privacy Policy</a>
293+
to learn how <a href="https://www.mdanalysis.org">MDAnalysis</a> collects data.</p>
294+
<script data-goatcounter="https://mdanalysis.goatcounter.com/count"
295+
async src="//gc.zgo.at/count.js"></script>
184296
</div>
185-
<script type="text/javascript">$('#searchbox').show(0);</script>
297+
298+
299+
</footer>
300+
186301
</div>
187302
</div>
188-
<div class="clearer"></div>
189-
</div>
190-
<div class="footer">
191-
&copy;2018, Oliver Beckstein, Shujie Fan, Micaela Matta, Richard J. Gowers.
192-
193-
|
194-
Powered by <a href="http://sphinx-doc.org/">Sphinx 2.1.2</a>
195-
&amp; <a href="https://github.com/bitprophet/alabaster">Alabaster 0.7.12</a>
196-
197-
|
198-
<a href="_sources/CG_fiber.rst.txt"
199-
rel="nofollow">Page source</a>
200-
</div>
201303

202-
203-
<a href="https://github.com/MDAnalysis/MDAnalysisData" class="github">
204-
<img style="position: absolute; top: 0; right: 0; border: 0;" src="https://s3.amazonaws.com/github/ribbons/forkme_right_darkblue_121621.png" alt="Fork me on GitHub" class="github"/>
205-
</a>
206-
304+
</section>
305+
306+
</div>
307+
207308

309+
<script type="text/javascript">
310+
jQuery(function () {
311+
SphinxRtdTheme.Navigation.enable(true);
312+
});
313+
</script>
314+
315+
316+
208317

209-
</body>
318+
319+
320+
</body>
210321
</html>

0 commit comments

Comments
 (0)