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<div class="section" id="compute-gyration-command">
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<span id="index-0"></span><h1>compute gyration command<a class="headerlink" href="#compute-gyration-command" title="Permalink to this headline">¶</a></h1>
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<div class="section" id="syntax">
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<h2>Syntax<a class="headerlink" href="#syntax" title="Permalink to this headline">¶</a></h2>
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<div class="highlight-python"><div class="highlight"><pre>compute ID group-ID gyration
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</pre></div>
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</div>
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<ul class="simple">
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<li>ID, group-ID are documented in <a class="reference internal" href="compute.html"><em>compute</em></a> command</li>
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<li>gyration = style name of this compute command</li>
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</ul>
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</div>
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<div class="section" id="examples">
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<h2>Examples<a class="headerlink" href="#examples" title="Permalink to this headline">¶</a></h2>
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<div class="highlight-python"><div class="highlight"><pre>compute 1 molecule gyration
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</pre></div>
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</div>
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</div>
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<div class="section" id="description">
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<h2>Description<a class="headerlink" href="#description" title="Permalink to this headline">¶</a></h2>
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<p>Define a computation that calculates the radius of gyration Rg of the
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group of atoms, including all effects due to atoms passing thru
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periodic boundaries.</p>
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<p>Rg is a measure of the size of the group of atoms, and is computed as
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the square root of the Rg^2 value in this formula</p>
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<img alt="_images/compute_gyration.jpg" class="align-center" src="_images/compute_gyration.jpg" />
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<p>where M is the total mass of the group, Rcm is the center-of-mass
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position of the group, and the sum is over all atoms in the group.</p>
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<p>A Rg^2 tensor, stored as a 6-element vector, is also calculated by
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this compute. The formula for the components of the tensor is the
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same as the above formula, except that (Ri - Rcm)^2 is replaced by
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(Rix - Rcmx) * (Riy - Rcmy) for the xy component, etc. The 6
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components of the vector are ordered xx, yy, zz, xy, xz, yz. Note
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that unlike the scalar Rg, each of the 6 values of the tensor is
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effectively a “squared” value, since the cross-terms may be negative
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and taking a sqrt() would be invalid.</p>
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<div class="admonition note">
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<p class="first admonition-title">Note</p>
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<p class="last">The coordinates of an atom contribute to Rg in “unwrapped” form,
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by using the image flags associated with each atom. See the <a class="reference internal" href="dump.html"><em>dump custom</em></a> command for a discussion of “unwrapped” coordinates.
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See the Atoms section of the <a class="reference internal" href="read_data.html"><em>read_data</em></a> command for a
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discussion of image flags and how they are set for each atom. You can
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reset the image flags (e.g. to 0) before invoking this compute by
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using the <a class="reference internal" href="set.html"><em>set image</em></a> command.</p>
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</div>
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<p><strong>Output info:</strong></p>
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<p>This compute calculates a global scalar (Rg) and a global vector of
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length 6 (Rg^2 tensor), which can be accessed by indices 1-6. These
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values can be used by any command that uses a global scalar value or
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vector values from a compute as input. See <a class="reference internal" href="Section_howto.html#howto-15"><span>Section_howto 15</span></a> for an overview of LAMMPS output
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options.</p>
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<p>The scalar and vector values calculated by this compute are
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“intensive”. The scalar and vector values will be in distance and
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distance^2 <a class="reference internal" href="units.html"><em>units</em></a> respectively.</p>
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</div>
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<div class="section" id="restrictions">
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<h2>Restrictions<a class="headerlink" href="#restrictions" title="Permalink to this headline">¶</a></h2>
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<blockquote>
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<div>none</div></blockquote>
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</div>
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<div class="section" id="related-commands">
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<h2>Related commands<a class="headerlink" href="#related-commands" title="Permalink to this headline">¶</a></h2>
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<p><a class="reference internal" href="compute_gyration_chunk.html"><em>compute gyration/chunk</em></a></p>
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<p><strong>Default:</strong> none</p>
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