-
Notifications
You must be signed in to change notification settings - Fork 0
/
classdescription.html
240 lines (219 loc) · 12.3 KB
/
classdescription.html
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
<!DOCTYPE html>
<html class="writer-html5" lang="en" data-content_root="./">
<head>
<meta charset="utf-8" /><meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>User Interface — ESPResSo++ vlatest</title>
<link rel="stylesheet" type="text/css" href="_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="_static/css/theme.css?v=e59714d7" />
<link rel="shortcut icon" href="_static/favicon_blue.ico"/>
<script src="_static/jquery.js?v=5d32c60e"></script>
<script src="_static/_sphinx_javascript_frameworks_compat.js?v=2cd50e6c"></script>
<script src="_static/documentation_options.js?v=c6e86fd7"></script>
<script src="_static/doctools.js?v=888ff710"></script>
<script src="_static/sphinx_highlight.js?v=dc90522c"></script>
<script src="_static/js/theme.js"></script>
<link rel="index" title="Index" href="genindex.html" />
<link rel="search" title="Search" href="search.html" />
<link rel="next" title="analysis" href="analysis.html" />
<link rel="prev" title="Thermodynamic integration" href="tutorial.ThermodynamicIntegration.html" />
</head>
<body class="wy-body-for-nav">
<div class="wy-grid-for-nav">
<nav data-toggle="wy-nav-shift" class="wy-nav-side">
<div class="wy-side-scroll">
<div class="wy-side-nav-search" >
<a href="index.html" class="icon icon-home">
ESPResSo++
<img src="_static/logo_theory_group.png" class="logo" alt="Logo"/>
</a>
<div role="search">
<form id="rtd-search-form" class="wy-form" action="search.html" method="get">
<input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
<input type="hidden" name="check_keywords" value="yes" />
<input type="hidden" name="area" value="default" />
</form>
</div>
</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
<ul class="current">
<li class="toctree-l1"><a class="reference internal" href="tutorial.html">Tutorial</a></li>
<li class="toctree-l1 current"><a class="current reference internal" href="#">User Interface</a><ul>
<li class="toctree-l2"><a class="reference internal" href="analysis.html">analysis</a></li>
<li class="toctree-l2"><a class="reference internal" href="bc.html">bc</a></li>
<li class="toctree-l2"><a class="reference internal" href="check.html">check</a></li>
<li class="toctree-l2"><a class="reference internal" href="esutil.html">esutil</a></li>
<li class="toctree-l2"><a class="reference internal" href="external.html">external</a></li>
<li class="toctree-l2"><a class="reference internal" href="integrator.html">integrator</a></li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html">interaction</a></li>
<li class="toctree-l2"><a class="reference internal" href="io.html">io</a></li>
<li class="toctree-l2"><a class="reference internal" href="espressopp.html">espressopp</a></li>
<li class="toctree-l2"><a class="reference internal" href="standard_system.html">standard_system</a></li>
<li class="toctree-l2"><a class="reference internal" href="storage.html">storage</a></li>
<li class="toctree-l2"><a class="reference internal" href="tools.html">tools</a></li>
<li class="toctree-l2"><a class="reference internal" href="logging.html">Logging mechanism</a></li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="pdf.html">PDF Manual</a></li>
<li class="toctree-l1"><a class="reference internal" href="credits.html">Credits</a></li>
</ul>
</div>
</div>
</nav>
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
<a href="index.html">ESPResSo++</a>
</nav>
<div class="wy-nav-content">
<div class="rst-content">
<div role="navigation" aria-label="Page navigation">
<ul class="wy-breadcrumbs">
<li><a href="index.html" class="icon icon-home" aria-label="Home"></a></li>
<li class="breadcrumb-item active">User Interface</li>
<li class="wy-breadcrumbs-aside">
<a href="_sources/classdescription.rst.txt" rel="nofollow"> View page source</a>
</li>
</ul>
<hr/>
</div>
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
<div itemprop="articleBody">
<section id="user-interface">
<h1>User Interface<a class="headerlink" href="#user-interface" title="Link to this heading"></a></h1>
<div class="toctree-wrapper compound">
<ul>
<li class="toctree-l1"><a class="reference internal" href="analysis.html">analysis</a><ul>
<li class="toctree-l2"><a class="reference internal" href="espressopp.analysis.AnalysisBase.html">espressopp.analysis.AnalysisBase</a><ul>
<li class="toctree-l3"><a class="reference internal" href="espressopp.analysis.LBOutput.html">espressopp.analysis.LBOutput</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="espressopp.analysis.Observable.html">espressopp.analysis.Observable</a><ul class="simple">
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="bc.html">bc</a><ul>
<li class="toctree-l2"><a class="reference internal" href="espressopp.bc.BC.html">espressopp.bc.BC</a><ul>
<li class="toctree-l3"><a class="reference internal" href="espressopp.bc.BC.html#espressopp-bc-orthorombicbc">espressopp.bc.OrthorombicBC</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.bc.BC.html#espressopp-bc-slabbc">espressopp.bc.SlabBC</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="check.html">check</a><ul class="simple">
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="esutil.html">esutil</a><ul class="simple">
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="external.html">external</a><ul class="simple">
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="integrator.html">integrator</a><ul>
<li class="toctree-l2"><a class="reference internal" href="espressopp.integrator.LatticeBoltzmann.html">espressopp.integrator.LatticeBoltzmann</a></li>
<li class="toctree-l2"><a class="reference internal" href="espressopp.integrator.LBInit.html">espressopp.integrator.LBInit</a><ul>
<li class="toctree-l3"><a class="reference internal" href="espressopp.integrator.LBInit.html#espressopp-integrator-lbinitpopuniform">espressopp.integrator.LBInitPopUniform</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.integrator.LBInit.html#espressopp-integrator-lbinitpopwave">espressopp.integrator.LBInitPopWave</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.integrator.LBInit.html#espressopp-integrator-lbinitconstforce">espressopp.integrator.LBInitConstForce</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.integrator.LBInit.html#espressopp-integrator-lbinitperiodicforce">espressopp.integrator.LBInitPeriodicForce</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="interaction.html">interaction</a><ul>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#angular">Angular</a><ul>
<li class="toctree-l3"><a class="reference internal" href="espressopp.interaction.AngularPotential.html">espressopp.interaction.AngularPotential</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#bonded">Bonded</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#charged">Charged</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#constrained">Constrained</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#dihedral">Dihedral</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#manybody">Manybody</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#pair">Pair</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#tabulated">Tabulated</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#wall">Wall</a><ul class="simple">
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="interaction.html#other">Other</a><ul class="simple">
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="io.html">io</a><ul>
<li class="toctree-l2"><a class="reference internal" href="espressopp.io.DumpH5MDParallel.html">Parallel H5MD Output</a><ul>
<li class="toctree-l3"><a class="reference internal" href="espressopp.io.DumpH5MDParallel.html#dump-simulation">Dump Simulation</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.io.DumpH5MDParallel.html#restore-simulation">Restore Simulation</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="espressopp.html">espressopp</a><ul class="simple">
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="standard_system.html">standard_system</a><ul class="simple">
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="storage.html">storage</a><ul class="simple">
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="tools.html">tools</a><ul>
<li class="toctree-l2"><a class="reference internal" href="espressopp.tools.analyse.html">information and analysis</a><ul>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.analyse.html#espressopp-tools-analyse">espressopp.tools.analyse</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.analyse.html#espressopp-tools-info">espressopp.tools.info</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.analyse.html#espressopp-tools-timers">espressopp.tools.timers</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.analyse.html#espressopp-tools-vmd">espressopp.tools.vmd</a></li>
</ul>
</li>
<li class="toctree-l2"><a class="reference internal" href="espressopp.tools.initcfg.html">initializing particles</a><ul>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.initcfg.html#espressopp-tools-lattice">espressopp.tools.lattice</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.initcfg.html#espressopp-tools-replicate">espressopp.tools.replicate</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.initcfg.html#espressopp-tools-topology">espressopp.tools.topology</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.initcfg.html#espressopp-tools-velocities">espressopp.tools.velocities</a></li>
<li class="toctree-l3"><a class="reference internal" href="espressopp.tools.initcfg.html#espressopp-tools-warmup">espressopp.tools.warmup</a></li>
</ul>
</li>
</ul>
</li>
<li class="toctree-l1"><a class="reference internal" href="logging.html">Logging mechanism</a></li>
</ul>
</div>
</section>
</div>
</div>
<footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
<a href="tutorial.ThermodynamicIntegration.html" class="btn btn-neutral float-left" title="Thermodynamic integration" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
<a href="analysis.html" class="btn btn-neutral float-right" title="analysis" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
</div>
<hr/>
<div role="contentinfo">
<p>© Copyright 2013-2024, Max Planck Institute for Polymer Research.</p>
</div>
Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
<a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
</footer>
</div>
</div>
</section>
</div>
<script>
jQuery(function () {
SphinxRtdTheme.Navigation.enable(true);
});
</script>
</body>
</html>