git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13798 f3b2605a-c512-4ea7-a41b-209d697bcdaa
This commit is contained in:
@ -1,253 +1,79 @@
|
||||
<HTML>
|
||||
<CENTER><A HREF = "http://lammps.sandia.gov">LAMMPS WWW Site</A> - <A HREF = "Manual.html">LAMMPS Documentation</A> - <A HREF = "Section_commands.html#comm">LAMMPS Commands</A>
|
||||
</CENTER>
|
||||
|
||||
|
||||
<!DOCTYPE html>
|
||||
<!--[if IE 8]><html class="no-js lt-ie9" lang="en" > <![endif]-->
|
||||
<!--[if gt IE 8]><!--> <html class="no-js" lang="en" > <!--<![endif]-->
|
||||
<head>
|
||||
<meta charset="utf-8">
|
||||
|
||||
<meta name="viewport" content="width=device-width, initial-scale=1.0">
|
||||
|
||||
<title>compute dihedral/local command — LAMMPS 15 May 2015 version documentation</title>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<link rel="stylesheet" href="_static/css/theme.css" type="text/css" />
|
||||
|
||||
|
||||
|
||||
<link rel="stylesheet" href="_static/sphinxcontrib-images/LightBox2/lightbox2/css/lightbox.css" type="text/css" />
|
||||
|
||||
|
||||
|
||||
<link rel="top" title="LAMMPS 15 May 2015 version documentation" href="index.html"/>
|
||||
|
||||
|
||||
<script src="_static/js/modernizr.min.js"></script>
|
||||
|
||||
</head>
|
||||
|
||||
<body class="wy-body-for-nav" role="document">
|
||||
|
||||
<div class="wy-grid-for-nav">
|
||||
|
||||
|
||||
<nav data-toggle="wy-nav-shift" class="wy-nav-side">
|
||||
<div class="wy-side-nav-search">
|
||||
|
||||
|
||||
|
||||
<a href="Manual.html" class="icon icon-home"> LAMMPS
|
||||
|
||||
|
||||
|
||||
</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" />
|
||||
<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="main navigation">
|
||||
|
||||
|
||||
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_intro.html">1. Introduction</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_start.html">2. Getting Started</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_commands.html">3. Commands</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_packages.html">4. Packages</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_accelerate.html">5. Accelerating LAMMPS performance</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_howto.html">6. How-to discussions</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_example.html">7. Example problems</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_perf.html">8. Performance & scalability</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_tools.html">9. Additional tools</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_modify.html">10. Modifying & extending LAMMPS</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_python.html">11. Python interface to LAMMPS</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_errors.html">12. Errors</a></li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="Section_history.html">13. Future and history</a></li>
|
||||
</ul>
|
||||
|
||||
|
||||
|
||||
</div>
|
||||
|
||||
</nav>
|
||||
|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap">
|
||||
|
||||
|
||||
<nav class="wy-nav-top" role="navigation" aria-label="top navigation">
|
||||
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
|
||||
<a href="Manual.html">LAMMPS</a>
|
||||
</nav>
|
||||
|
||||
|
||||
|
||||
<div class="wy-nav-content">
|
||||
<div class="rst-content">
|
||||
<div role="navigation" aria-label="breadcrumbs navigation">
|
||||
<ul class="wy-breadcrumbs">
|
||||
<li><a href="Manual.html">Docs</a> »</li>
|
||||
|
||||
<li>compute dihedral/local command</li>
|
||||
<li class="wy-breadcrumbs-aside">
|
||||
|
||||
|
||||
<a href="http://lammps.sandia.gov">Website</a>
|
||||
<a href="Section_commands.html#comm">Commands</a>
|
||||
|
||||
</li>
|
||||
</ul>
|
||||
<hr/>
|
||||
|
||||
</div>
|
||||
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<div class="section" id="compute-dihedral-local-command">
|
||||
<span id="index-0"></span><h1>compute dihedral/local command<a class="headerlink" href="#compute-dihedral-local-command" title="Permalink to this headline">¶</a></h1>
|
||||
<div class="section" id="syntax">
|
||||
<h2>Syntax<a class="headerlink" href="#syntax" title="Permalink to this headline">¶</a></h2>
|
||||
<div class="highlight-python"><div class="highlight"><pre>compute ID group-ID dihedral/local input1 input2 ...
|
||||
</pre></div>
|
||||
</div>
|
||||
<ul class="simple">
|
||||
<li>ID, group-ID are documented in <a class="reference internal" href="compute.html"><em>compute</em></a> command</li>
|
||||
<li>dihedral/local = style name of this compute command</li>
|
||||
<li>one or more keywords may be appended</li>
|
||||
<li>keyword = <em>phi</em></li>
|
||||
</ul>
|
||||
<pre class="literal-block">
|
||||
<em>phi</em> = tabulate dihedral angles
|
||||
</pre>
|
||||
</div>
|
||||
<div class="section" id="examples">
|
||||
<h2>Examples<a class="headerlink" href="#examples" title="Permalink to this headline">¶</a></h2>
|
||||
<div class="highlight-python"><div class="highlight"><pre>compute 1 all dihedral/local phi
|
||||
</pre></div>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="description">
|
||||
<h2>Description<a class="headerlink" href="#description" title="Permalink to this headline">¶</a></h2>
|
||||
<p>Define a computation that calculates properties of individual dihedral
|
||||
|
||||
|
||||
<HR>
|
||||
|
||||
<H3>compute dihedral/local command
|
||||
</H3>
|
||||
<P><B>Syntax:</B>
|
||||
</P>
|
||||
<PRE>compute ID group-ID dihedral/local input1 input2 ...
|
||||
</PRE>
|
||||
<UL><LI>ID, group-ID are documented in <A HREF = "compute.html">compute</A> command
|
||||
|
||||
<LI>dihedral/local = style name of this compute command
|
||||
|
||||
<LI>one or more keywords may be appended
|
||||
|
||||
<LI>keyword = <I>phi</I>
|
||||
|
||||
<PRE> <I>phi</I> = tabulate dihedral angles
|
||||
</PRE>
|
||||
|
||||
</UL>
|
||||
<P><B>Examples:</B>
|
||||
</P>
|
||||
<PRE>compute 1 all dihedral/local phi
|
||||
</PRE>
|
||||
<P><B>Description:</B>
|
||||
</P>
|
||||
<P>Define a computation that calculates properties of individual dihedral
|
||||
interactions. The number of datums generated, aggregated across all
|
||||
processors, equals the number of angles in the system, modified by the
|
||||
group parameter as explained below.</p>
|
||||
<p>The local data stored by this command is generated by looping over all
|
||||
group parameter as explained below.
|
||||
</P>
|
||||
<P>The local data stored by this command is generated by looping over all
|
||||
the atoms owned on a processor and their dihedrals. A dihedral will
|
||||
only be included if all 4 atoms in the dihedral are in the specified
|
||||
compute group.</p>
|
||||
<p>Note that as atoms migrate from processor to processor, there will be
|
||||
compute group.
|
||||
</P>
|
||||
<P>Note that as atoms migrate from processor to processor, there will be
|
||||
no consistent ordering of the entries within the local vector or array
|
||||
from one timestep to the next. The only consistency that is
|
||||
guaranteed is that the ordering on a particular timestep will be the
|
||||
same for local vectors or arrays generated by other compute commands.
|
||||
For example, dihedral output from the <a class="reference internal" href="compute_property_local.html"><em>compute property/local</em></a> command can be combined
|
||||
with data from this command and output by the <a class="reference internal" href="dump.html"><em>dump local</em></a>
|
||||
command in a consistent way.</p>
|
||||
<p><strong>Output info:</strong></p>
|
||||
<p>This compute calculates a local vector or local array depending on the
|
||||
For example, dihedral output from the <A HREF = "compute_property_local.html">compute
|
||||
property/local</A> command can be combined
|
||||
with data from this command and output by the <A HREF = "dump.html">dump local</A>
|
||||
command in a consistent way.
|
||||
</P>
|
||||
<P><B>Output info:</B>
|
||||
</P>
|
||||
<P>This compute calculates a local vector or local array depending on the
|
||||
number of keywords. The length of the vector or number of rows in the
|
||||
array is the number of dihedrals. If a single keyword is specified, a
|
||||
local vector is produced. If two or more keywords are specified, a
|
||||
local array is produced where the number of columns = the number of
|
||||
keywords. The vector or array can be accessed by any command that
|
||||
uses local values from a compute as input. See <a class="reference internal" href="Section_howto.html#howto-15"><span>this section</span></a> for an overview of LAMMPS output
|
||||
options.</p>
|
||||
<p>The output for <em>phi</em> will be in degrees.</p>
|
||||
</div>
|
||||
<div class="section" id="restrictions">
|
||||
<h2>Restrictions<a class="headerlink" href="#restrictions" title="Permalink to this headline">¶</a></h2>
|
||||
<blockquote>
|
||||
<div>none</div></blockquote>
|
||||
</div>
|
||||
<div class="section" id="related-commands">
|
||||
<h2>Related commands<a class="headerlink" href="#related-commands" title="Permalink to this headline">¶</a></h2>
|
||||
<p><a class="reference internal" href="dump.html"><em>dump local</em></a>, <a class="reference internal" href="compute_property_local.html"><em>compute property/local</em></a></p>
|
||||
<p><strong>Default:</strong> none</p>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>
|
||||
© Copyright .
|
||||
</p>
|
||||
</div>
|
||||
Built with <a href="http://sphinx-doc.org/">Sphinx</a> using a <a href="https://github.com/snide/sphinx_rtd_theme">theme</a> provided by <a href="https://readthedocs.org">Read the Docs</a>.
|
||||
|
||||
</footer>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
|
||||
</section>
|
||||
|
||||
</div>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<script type="text/javascript">
|
||||
var DOCUMENTATION_OPTIONS = {
|
||||
URL_ROOT:'./',
|
||||
VERSION:'15 May 2015 version',
|
||||
COLLAPSE_INDEX:false,
|
||||
FILE_SUFFIX:'.html',
|
||||
HAS_SOURCE: true
|
||||
};
|
||||
</script>
|
||||
<script type="text/javascript" src="_static/jquery.js"></script>
|
||||
<script type="text/javascript" src="_static/underscore.js"></script>
|
||||
<script type="text/javascript" src="_static/doctools.js"></script>
|
||||
<script type="text/javascript" src="https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script>
|
||||
<script type="text/javascript" src="_static/sphinxcontrib-images/LightBox2/lightbox2/js/jquery-1.11.0.min.js"></script>
|
||||
<script type="text/javascript" src="_static/sphinxcontrib-images/LightBox2/lightbox2/js/lightbox.min.js"></script>
|
||||
<script type="text/javascript" src="_static/sphinxcontrib-images/LightBox2/lightbox2-customize/jquery-noconflict.js"></script>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<script type="text/javascript" src="_static/js/theme.js"></script>
|
||||
|
||||
|
||||
|
||||
|
||||
<script type="text/javascript">
|
||||
jQuery(function () {
|
||||
SphinxRtdTheme.StickyNav.enable();
|
||||
});
|
||||
</script>
|
||||
|
||||
|
||||
</body>
|
||||
</html>
|
||||
uses local values from a compute as input. See <A HREF = "Section_howto.html#howto_15">this
|
||||
section</A> for an overview of LAMMPS output
|
||||
options.
|
||||
</P>
|
||||
<P>The output for <I>phi</I> will be in degrees.
|
||||
</P>
|
||||
<P><B>Restrictions:</B> none
|
||||
</P>
|
||||
<P><B>Related commands:</B>
|
||||
</P>
|
||||
<P><A HREF = "dump.html">dump local</A>, <A HREF = "compute_property_local.html">compute
|
||||
property/local</A>
|
||||
</P>
|
||||
<P><B>Default:</B> none
|
||||
</P>
|
||||
</HTML>
|
||||
|
||||
Reference in New Issue
Block a user