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Merge pull request #21 from pyroteus/19_movement
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Add Movement docs
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@jwallwork23
jwallwork23 authored Jan 15, 2024
2 parents 36c4d8f + b1a7f3f commit 17e1f12
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10 changes: 4 additions & 6 deletions _modules/goalie/adjoint.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>goalie.adjoint &#8212; Animate and Goalie 0.1 documentation</title>
<title>goalie.adjoint &#8212; Animate, Movement and Goalie 0.1 documentation</title>
<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../../_static/nature.css?v=601dbdee" />
<script src="../../_static/documentation_options.js?v=2709fde1"></script>
Expand All @@ -22,7 +22,7 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-1"><a href="../index.html" accesskey="U">Module code</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">goalie.adjoint</a></li>
</ul>
Expand Down Expand Up @@ -434,9 +434,7 @@ <h1>Source code for goalie.adjoint</h1><div class="highlight"><pre>
<span class="p">)</span>
<span class="k">elif</span> <span class="n">j</span> <span class="o">*</span> <span class="n">stride</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">==</span> <span class="n">num_solve_blocks</span><span class="p">:</span>
<span class="k">if</span> <span class="n">i</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">&lt;</span> <span class="n">num_subintervals</span><span class="p">:</span>
<span class="n">sols</span><span class="o">.</span><span class="n">adjoint_next</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">project</span><span class="p">(</span>
<span class="n">sols</span><span class="o">.</span><span class="n">adjoint_next</span><span class="p">[</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">fs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
<span class="p">)</span>
<span class="n">sols</span><span class="o">.</span><span class="n">adjoint_next</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">project</span><span class="p">(</span><span class="n">sols</span><span class="o">.</span><span class="n">adjoint_next</span><span class="p">[</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
<span class="k">else</span><span class="p">:</span>
<span class="k">raise</span> <span class="ne">IndexError</span><span class="p">(</span>
<span class="s2">&quot;Cannot extract solve block&quot;</span>
Expand Down Expand Up @@ -560,7 +558,7 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-1"><a href="../index.html" >Module code</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">goalie.adjoint</a></li>
</ul>
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122 changes: 43 additions & 79 deletions _modules/goalie/go_mesh_seq.html
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12 changes: 6 additions & 6 deletions _modules/goalie/mesh_seq.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>goalie.mesh_seq &#8212; Animate and Goalie 0.1 documentation</title>
<title>goalie.mesh_seq &#8212; Animate, Movement and Goalie 0.1 documentation</title>
<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../../_static/nature.css?v=601dbdee" />
<script src="../../_static/documentation_options.js?v=2709fde1"></script>
Expand All @@ -22,7 +22,7 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-1"><a href="../index.html" accesskey="U">Module code</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">goalie.mesh_seq</a></li>
</ul>
Expand Down Expand Up @@ -211,11 +211,11 @@ <h1>Source code for goalie.mesh_seq</h1><div class="highlight"><pre>

<span class="sd"> :kwarg fig: matplotlib figure</span>
<span class="sd"> :kwarg axes: matplotlib axes</span>
<span class="sd"> :kwargs: parameters to pass to :func:`firedrake.plot.triplot`</span>
<span class="sd"> function</span>
<span class="sd"> :kwargs: parameters to pass to :func:`firedrake.plot.triplot` function</span>
<span class="sd"> :return: matplotlib figure and axes for the plots</span>
<span class="sd"> &quot;&quot;&quot;</span>
<span class="kn">from</span> <span class="nn">matplotlib.pyplot</span> <span class="kn">import</span> <span class="n">subplots</span>
<span class="kn">from</span> <span class="nn">firedrake.pyplot</span> <span class="kn">import</span> <span class="n">triplot</span>

<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">dim</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
<span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;MeshSeq plotting only supported in 2D&quot;</span><span class="p">)</span>
Expand All @@ -242,7 +242,7 @@ <h1>Source code for goalie.mesh_seq</h1><div class="highlight"><pre>
<span class="n">axis</span> <span class="o">=</span> <span class="p">[</span><span class="n">axis</span><span class="p">]</span>
<span class="k">for</span> <span class="n">ax</span> <span class="ow">in</span> <span class="n">axis</span><span class="p">:</span>
<span class="n">ax</span><span class="o">.</span><span class="n">set_title</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;MeshSeq[</span><span class="si">{</span><span class="n">k</span><span class="si">}</span><span class="s2">]&quot;</span><span class="p">)</span>
<span class="n">firedrake</span><span class="o">.</span><span class="n">triplot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">meshes</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="n">axes</span><span class="o">=</span><span class="n">ax</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
<span class="n">triplot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">meshes</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="n">axes</span><span class="o">=</span><span class="n">ax</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
<span class="n">ax</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
<span class="n">k</span> <span class="o">+=</span> <span class="mi">1</span>
<span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">axis</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
Expand Down Expand Up @@ -824,7 +824,7 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-1"><a href="../index.html" >Module code</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">goalie.mesh_seq</a></li>
</ul>
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10 changes: 5 additions & 5 deletions _modules/goalie/plot.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>goalie.plot &#8212; Animate and Goalie 0.1 documentation</title>
<title>goalie.plot &#8212; Animate, Movement and Goalie 0.1 documentation</title>
<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../../_static/nature.css?v=601dbdee" />
<script src="../../_static/documentation_options.js?v=2709fde1"></script>
Expand All @@ -22,7 +22,7 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-1"><a href="../index.html" accesskey="U">Module code</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">goalie.plot</a></li>
</ul>
Expand All @@ -37,7 +37,7 @@ <h1>Source code for goalie.plot</h1><div class="highlight"><pre>
<span></span><span class="sd">&quot;&quot;&quot;</span>
<span class="sd">Driver functions for plotting solution data.</span>
<span class="sd">&quot;&quot;&quot;</span>
<span class="kn">from</span> <span class="nn">firedrake</span> <span class="kn">import</span> <span class="n">tricontourf</span><span class="p">,</span> <span class="n">triplot</span> <span class="c1"># noqa</span>
<span class="kn">from</span> <span class="nn">firedrake.pyplot</span> <span class="kn">import</span> <span class="n">tricontourf</span><span class="p">,</span> <span class="n">triplot</span> <span class="c1"># noqa</span>
<span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>


Expand Down Expand Up @@ -160,13 +160,13 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-1"><a href="../index.html" >Module code</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">goalie.plot</a></li>
</ul>
</div>
<div class="footer" role="contentinfo">
&#169; Copyright 2021-2023, Joseph G. Wallwork et al..
&#169; Copyright 2021-2024, Joseph G. Wallwork et al..
Created using <a href="https://www.sphinx-doc.org/">Sphinx</a> 7.2.6.
</div>
</body>
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11 changes: 8 additions & 3 deletions _modules/index.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>Overview: module code &#8212; Animate and Goalie 0.1 documentation</title>
<title>Overview: module code &#8212; Animate, Movement and Goalie 0.1 documentation</title>
<link rel="stylesheet" type="text/css" href="../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../_static/nature.css?v=601dbdee" />
<script src="../_static/documentation_options.js?v=2709fde1"></script>
Expand All @@ -22,7 +22,7 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">Overview: module code</a></li>
</ul>
</div>
Expand Down Expand Up @@ -52,6 +52,11 @@ <h1>All modules for which code is available</h1>
<li><a href="goalie/time_partition.html">goalie.time_partition</a></li>
<li><a href="goalie/utility.html">goalie.utility</a></li>
<li><a href="logging.html">logging</a></li>
<li><a href="movement/laplacian.html">movement.laplacian</a></li>
<li><a href="movement/monge_ampere.html">movement.monge_ampere</a></li>
<li><a href="movement/mover.html">movement.mover</a></li>
<li><a href="movement/spring.html">movement.spring</a></li>
<li><a href="movement/tangling.html">movement.tangling</a></li>
</ul>

<div class="clearer"></div>
Expand Down Expand Up @@ -83,7 +88,7 @@ <h3>Navigation</h3>
<li class="right" >
<a href="../py-modindex.html" title="Python Module Index"
>modules</a> |</li>
<li class="nav-item nav-item-0"><a href="../index.html">Animate and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-0"><a href="../index.html">Animate, Movement and Goalie 0.1 documentation</a> &#187;</li>
<li class="nav-item nav-item-this"><a href="">Overview: module code</a></li>
</ul>
</div>
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