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<div class="section" id="group2ndx-command">
<span id="index-0"></span><h1>group2ndx command<a class="headerlink" href="#group2ndx-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>group2ndx file group-ID ...
</pre></div>
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<ul class="simple">
<li>file = name of index file to write out</li>
<li>zero or more group IDs may be appended</li>
</ul>
</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>group2ndx allindex.ndx
group2ndx someindex.ndx upper lower mobile
</pre></div>
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<div class="section" id="description">
<h2>Description<a class="headerlink" href="#description" title="Permalink to this headline">¶</a></h2>
<p>Write a Gromacs style index file in text format that associates atom IDs
with the corresponding group definitions. This index file can be used
with in combination with Gromacs analysis tools or to import group
definitions into the <a class="reference internal" href="fix_colvars.html"><em>fix colvars</em></a> input file.</p>
<p>Without specifying any group IDs, all groups will be written to the index
file. When specifying group IDs, only those groups will be written to the
index file. In order to follow the Gromacs conventions, the group <em>all</em>
will be renamed to <em>System</em> in the index file.</p>
</div>
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<div class="section" id="restrictions">
<h2>Restrictions<a class="headerlink" href="#restrictions" title="Permalink to this headline">¶</a></h2>
<p>This command requires that atoms have atom IDs, since this is the
information that is written to the index file.</p>
<p>This fix is part of the USER-COLVARS package. It is only enabled if
LAMMPS was built with that package. See the <a class="reference internal" href="Section_start.html#start-3"><span>Making LAMMPS</span></a> section for more info.</p>
</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="group.html"><em>group</em></a>, <a class="reference internal" href="dump.html"><em>dump</em></a>, <a class="reference internal" href="fix_colvars.html"><em>fix colvars</em></a></p>
<p><strong>Default:</strong> none</p>
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