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<h2 id="psets" class="uk-h3 uk-margin-remove">2. Define Boundaries Using Point Sets</h2>
<p>In LaGriT, a pset (or <em>point-set</em>) is a collection of points (nodes) within a
mesh object. Similarly, an eltset (<em>element-set</em>) is a collection of mesh
elements. By capturing points and elements, discrete manipulations can be
performed on them, such as translation, removal, or attribute functions.</p>
<p>In this example, point sets are used to create a boundary on the top surface of
the created hex mesh. The boundary will be the intersection of three circles on
the top layer of the mesh.</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code># Set vertices (imt) and cells (itetlcr) to 1
cmo / setatt / mohex / imt / 1 0 0 / 1
cmo / setatt / mohex / itetclr / 1 0 0 / 1
resetpts / itp
</code></pre></div></div>
<p>Capturing a <code class="language-plaintext highlighter-rouge">pset</code> is done through the command</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code>pset / pset_name / select_type / select_type_options
</code></pre></div></div>
<p>where <code class="language-plaintext highlighter-rouge">pset_name</code> is an arbitrary variable name to store the pset into,
<code class="language-plaintext highlighter-rouge">select_type</code> is the method of pset selection, and <code class="language-plaintext highlighter-rouge">select_type_options</code> are
parameters specific to the chosen <code class="language-plaintext highlighter-rouge">select_type</code> for configuring the subset
selection (see the <a href="/pages/docs/commands/PSET.html">documentation</a> for more information).</p>
<h3 id="21-pset-definitions">2.1 PSet Definitions</h3>
<p>As the boundary will live only in the top layer, nodes belonging to the top
layer will be identified first.</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code>pset / p_top / attribute / zic / 1 0 0 / ge / Z1
</code></pre></div></div>
<p>Here, a pset named <code class="language-plaintext highlighter-rouge">p_top</code> is created. This pset contains all nodes
(stride = <code class="language-plaintext highlighter-rouge">1 0 0</code>) where the node’s Z value (<code class="language-plaintext highlighter-rouge">zic</code>) is greater than or equal to
(<code class="language-plaintext highlighter-rouge">ge</code>) the top of the mesh (<code class="language-plaintext highlighter-rouge">Z1</code>). Remember that we defined <code class="language-plaintext highlighter-rouge">Z1</code> above for the
initial creation of the mesh - and that by simply changing <code class="language-plaintext highlighter-rouge">Z1</code> and re-running
the script, this pset capture will still be valid for any value of <code class="language-plaintext highlighter-rouge">Z1</code>
(where <code class="language-plaintext highlighter-rouge">Z1 &gt; Z0</code>).</p>
<p>Now that the top is defined, we will move to defining three cylindrical
objects.</p>
<p>This is done through the command</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code>pset / pset_name / geom / rtz / ifirst,ilast,istride / r1,t1,z1 / r2,t2,z2 / xcen,ycen,zcen
</code></pre></div></div>
<p>which forms a pset of nodes within the cylinder or cylindrical shell given by
radius r1 to r2, angle theta t1 to t2 and height z1 to z2.</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code>pset / p_circle1 / geom / rtz / 1 0 0 / 0. 0. -1.0 / &amp;
1100. 360. 1.e4 / 1500. 1500. 0.
pset / p_circle2 / geom / rtz / 1 0 0 / 0. 0. -1.0 / &amp;
1100. 360. 1.e4 / 2500. 2500. 0.
pset / p_circle3 / geom / rtz / 1 0 0 / 0. 0. -1.0 / &amp;
1100. 360. 1.e4 / 2500. 1500. 0.
</code></pre></div></div>
<p>Above, any points within a full circle (theta = <code class="language-plaintext highlighter-rouge">360</code>) of radius <code class="language-plaintext highlighter-rouge">1100.</code> and
within <code class="language-plaintext highlighter-rouge">Z={-1.0,1.e4}</code> are captured. Three different cylinders are created,
where only the centroids change.</p>
<p>Finally, all four psets are intersected such that all points belonging to the
union of all given sets are preserved into the point seet <code class="language-plaintext highlighter-rouge">p_region</code>:</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code>pset / p_region / inter / p_top p_circle1 p_circle2 p_circle3
</code></pre></div></div>
<p>This creates a point-set where all points (i) live on the top layer, and (ii)
live within the intersection of the three cylinders.</p>
<h3 id="22-map-psets-to-an-attribute">2.2 Map PSets to an Attribute</h3>
<p>As a simple sanity check during meshing, it can be helpful to map mesh
operations to an attribute. These can be visualized at intermediate steps in
the meshing process to provide a form of verification or debugging.</p>
<p>First, create an attribute using the <code class="language-plaintext highlighter-rouge">cmo / addatt</code> command:</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code>cmo / addatt / MONAME / id_top_region / vint / scalar / nnodes
</code></pre></div></div>
<p>Here, an attribute named <code class="language-plaintext highlighter-rouge">id_top_region</code> is created within the mesh <code class="language-plaintext highlighter-rouge">MONAME</code>,
and has type integer (<code class="language-plaintext highlighter-rouge">vint</code>), is of scalar dimensions, and is a node-based
attribute (<code class="language-plaintext highlighter-rouge">nnodes</code>).</p>
<p>The attribute can be progressively filled in with different values based on
the psets:</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code># Fill the entire attribute with 1
cmo / setatt / MONAME / id_top_region / 1 0 0 / 1
# Color all nodes in the pset p_circle1 with the value 2
cmo / setatt / MONAME / id_top_region / pset get p_circle1 / 2
# Color all nodes in the pset p_circle2 with the value 2
cmo / setatt / MONAME / id_top_region / pset get p_circle2 / 3
# And so on...
cmo / setatt / MONAME / id_top_region / pset get p_circle3 / 4
cmo / setatt / MONAME / id_top_region / pset get p_region / 5
</code></pre></div></div>
<p>Finally, release the psets from memory:</p>
<div class="language-plaintext highlighter-rouge"><div class="highlight"><pre class="highlight"><code>pset / p_top / release
pset / p_circle1 / release
pset / p_circle2 / release
pset / p_circle3 / release
pset / p_region / release
</code></pre></div></div>
<p>Cutting through the mesh in ParaView, we can visualize <code class="language-plaintext highlighter-rouge">id_top_region</code> and
validate that the mesh is being constructed as expected:</p>
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<li class=""><a href="/pages/tutorial/stratigraphy/index.html">Index</a></li>
<li class=""><a href="/pages/tutorial/stratigraphy/step_01.html">1. Building a Hex Mesh</a></li>
<li class="uk-active"><a href="#psets">2. Define Boundaries Using Point Sets</a></li>
<li class=""><a href="/pages/tutorial/stratigraphy/step_03.html">3. Constructing Stratigraphy</a></li>
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<li class=""><a href="/pages/tutorial/stratigraphy/step_07.html">7. Refine Fault</a></li>
<li class=""><a href="/pages/tutorial/stratigraphy/step_08.html">8. Insert Wells</a></li>
<li class=""><a href="/pages/tutorial/stratigraphy/step_09.html">9. Convert Hex Mesh to Tet</a></li>
<li class=""><a href="/pages/tutorial/stratigraphy/step_10_fehm.html">10.1 Write FEHM Files</a></li>
<li class=""><a href="/pages/tutorial/stratigraphy/step_10_exo.html">10.2 Write ExodusII Files</a></li>
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