docs(docs): rebuilt

This commit is contained in:
2025-11-25 14:31:59 -05:00
parent b0c68a709f
commit 2eebbf6819
1514 changed files with 83712 additions and 57694 deletions

View File

@@ -4,185 +4,36 @@
<!-- Generated by graphviz version 13.0.1 (20250615.1724)
-->
<!-- Title: Graphical Class Hierarchy Pages: 1 -->
<svg width="634pt" height="174pt"
viewBox="0.00 0.00 634.00 174.00" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink">
<g id="graph0" class="graph" transform="scale(1 1) rotate(0) translate(4 169.88)">
<svg width="279pt" height="50pt"
viewBox="0.00 0.00 279.00 50.00" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink">
<g id="graph0" class="graph" transform="scale(1 1) rotate(0) translate(4 45.75)">
<title>Graphical Class Hierarchy</title>
<!-- Node0 -->
<g id="Node000000" class="node">
<title>Node0</title>
<g id="a_Node000000"><a xlink:href="classgridfire_1_1engine_1_1_engine.html" target="_top" xlink:title="Abstract base class for a reaction network engine.">
<polygon fill="white" stroke="#666666" points="115.75,-62.25 0,-62.25 0,-43 115.75,-43 115.75,-62.25"/>
<text xml:space="preserve" text-anchor="middle" x="57.88" y="-48.75" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Engine</text>
<g id="a_Node000000"><a xlink:href="classgridfire_1_1engine_1_1_engine_view.html" target="_top" xlink:title=" ">
<polygon fill="white" stroke="#666666" points="115.75,-41.75 0,-41.75 0,0 115.75,0 115.75,-41.75"/>
<text xml:space="preserve" text-anchor="start" x="8" y="-28.25" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Engine</text>
<text xml:space="preserve" text-anchor="start" x="8" y="-17" font-family="Helvetica,sans-Serif" font-size="10.00">View&lt; gridfire::engine</text>
<text xml:space="preserve" text-anchor="middle" x="57.88" y="-5.75" font-family="Helvetica,sans-Serif" font-size="10.00">::DynamicEngine &gt;</text>
</a>
</g>
</g>
<!-- Node1 -->
<g id="Node000001" class="node">
<title>Node1</title>
<g id="a_Node000001"><a xlink:href="classgridfire_1_1engine_1_1_dynamic_engine.html" target="_top" xlink:title="Abstract class for engines supporting Jacobian and stoichiometry operations.">
<polygon fill="white" stroke="#666666" points="276.5,-67.88 151.75,-67.88 151.75,-37.38 276.5,-37.38 276.5,-67.88"/>
<text xml:space="preserve" text-anchor="start" x="159.75" y="-54.38" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Dynamic</text>
<text xml:space="preserve" text-anchor="middle" x="214.12" y="-43.12" font-family="Helvetica,sans-Serif" font-size="10.00">Engine</text>
<g id="a_Node000001"><a xlink:href="class_py_dynamic_engine_view.html" target="_top" xlink:title=" ">
<polygon fill="white" stroke="#666666" points="270.5,-30.5 151.75,-30.5 151.75,-11.25 270.5,-11.25 270.5,-30.5"/>
<text xml:space="preserve" text-anchor="middle" x="211.12" y="-17" font-family="Helvetica,sans-Serif" font-size="10.00">PyDynamicEngineView</text>
</a>
</g>
</g>
<!-- Node0&#45;&gt;Node1 -->
<g id="edge6_Node000000_Node000001" class="edge">
<g id="edge16_Node000000_Node000001" class="edge">
<title>Node0&#45;&gt;Node1</title>
<g id="a_edge6_Node000000_Node000001"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M127.17,-52.62C135.25,-52.62 143.46,-52.62 151.44,-52.62"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="127.39,-49.13 117.39,-52.63 127.39,-56.13 127.39,-49.13"/>
</a>
</g>
</g>
<!-- Node2 -->
<g id="Node000002" class="node">
<title>Node2</title>
<g id="a_Node000002"><a xlink:href="classgridfire_1_1engine_1_1_adaptive_engine_view.html" target="_top" xlink:title="An engine view that dynamically adapts the reaction network based on runtime conditions.">
<polygon fill="white" stroke="#666666" points="445.5,-165.88 321.5,-165.88 321.5,-135.38 445.5,-135.38 445.5,-165.88"/>
<text xml:space="preserve" text-anchor="start" x="329.5" y="-152.38" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Adaptive</text>
<text xml:space="preserve" text-anchor="middle" x="383.5" y="-141.12" font-family="Helvetica,sans-Serif" font-size="10.00">EngineView</text>
</a>
</g>
</g>
<!-- Node1&#45;&gt;Node2 -->
<g id="edge7_Node000001_Node000002" class="edge">
<title>Node1&#45;&gt;Node2</title>
<g id="a_edge7_Node000001_Node000002"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M271.16,-73.85C273,-75.05 274.79,-76.31 276.5,-77.62 297.61,-93.91 291.03,-109.8 312.5,-125.62 317.38,-129.22 322.83,-132.34 328.47,-135.04"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="273.27,-71.02 262.85,-69.07 269.77,-77.09 273.27,-71.02"/>
</a>
</g>
</g>
<!-- Node4 -->
<g id="Node000004" class="node">
<title>Node4</title>
<g id="a_Node000004"><a xlink:href="classgridfire_1_1engine_1_1_defined_engine_view.html" target="_top" xlink:title=" ">
<polygon fill="white" stroke="#666666" points="443.25,-116.88 323.75,-116.88 323.75,-86.38 443.25,-86.38 443.25,-116.88"/>
<text xml:space="preserve" text-anchor="start" x="331.75" y="-103.38" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Defined</text>
<text xml:space="preserve" text-anchor="middle" x="383.5" y="-92.12" font-family="Helvetica,sans-Serif" font-size="10.00">EngineView</text>
</a>
</g>
</g>
<!-- Node1&#45;&gt;Node4 -->
<g id="edge8_Node000001_Node000004" class="edge">
<title>Node1&#45;&gt;Node4</title>
<g id="a_edge8_Node000001_Node000004"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M279.59,-71.5C295.82,-76.25 313.08,-81.3 328.73,-85.88"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="280.58,-68.14 270,-68.69 278.61,-74.86 280.58,-68.14"/>
</a>
</g>
</g>
<!-- Node8 -->
<g id="Node000008" class="node">
<title>Node8</title>
<g id="a_Node000008"><a xlink:href="classgridfire_1_1engine_1_1_graph_engine.html" target="_top" xlink:title="A reaction network engine that uses a graph&#45;based representation.">
<polygon fill="white" stroke="#666666" points="454.5,-19.25 312.5,-19.25 312.5,0 454.5,0 454.5,-19.25"/>
<text xml:space="preserve" text-anchor="middle" x="383.5" y="-5.75" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::GraphEngine</text>
</a>
</g>
</g>
<!-- Node1&#45;&gt;Node8 -->
<g id="edge11_Node000001_Node000008" class="edge">
<title>Node1&#45;&gt;Node8</title>
<g id="a_edge11_Node000001_Node000008"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M286.96,-34.17C306.28,-29.21 326.46,-24.02 343.27,-19.7"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="286.31,-30.72 277.49,-36.6 288.05,-37.5 286.31,-30.72"/>
</a>
</g>
</g>
<!-- Node7 -->
<g id="Node000007" class="node">
<title>Node7</title>
<g id="a_Node000007"><a xlink:href="classgridfire_1_1engine_1_1_multiscale_partitioning_engine_view.html" target="_top" xlink:title="An engine view that partitions the reaction network into multiple groups based on timescales.">
<polygon fill="white" stroke="#666666" points="448.5,-67.88 318.5,-67.88 318.5,-37.38 448.5,-37.38 448.5,-67.88"/>
<text xml:space="preserve" text-anchor="start" x="326.5" y="-54.38" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Multiscale</text>
<text xml:space="preserve" text-anchor="middle" x="383.5" y="-43.12" font-family="Helvetica,sans-Serif" font-size="10.00">PartitioningEngineView</text>
</a>
</g>
</g>
<!-- Node1&#45;&gt;Node7 -->
<g id="edge12_Node000001_Node000007" class="edge">
<title>Node1&#45;&gt;Node7</title>
<g id="a_edge12_Node000001_Node000007"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M288.45,-52.62C298.32,-52.62 308.4,-52.62 318.1,-52.62"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="288.49,-49.13 278.49,-52.63 288.49,-56.13 288.49,-49.13"/>
</a>
</g>
</g>
<!-- Node5 -->
<g id="Node000005" class="node">
<title>Node5</title>
<g id="a_Node000005"><a xlink:href="classgridfire_1_1engine_1_1_file_defined_engine_view.html" target="_top" xlink:title=" ">
<polygon fill="white" stroke="#666666" points="625.75,-140.88 490.5,-140.88 490.5,-110.38 625.75,-110.38 625.75,-140.88"/>
<text xml:space="preserve" text-anchor="start" x="498.5" y="-127.38" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::FileDefined</text>
<text xml:space="preserve" text-anchor="middle" x="558.12" y="-116.12" font-family="Helvetica,sans-Serif" font-size="10.00">EngineView</text>
</a>
</g>
</g>
<!-- Node4&#45;&gt;Node5 -->
<g id="edge9_Node000004_Node000005" class="edge">
<title>Node4&#45;&gt;Node5</title>
<g id="a_edge9_Node000004_Node000005"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M454.54,-111.36C466.3,-113 478.48,-114.69 490.16,-116.31"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="455.31,-107.94 444.92,-110.03 454.35,-114.87 455.31,-107.94"/>
</a>
</g>
</g>
<!-- Node6 -->
<g id="Node000006" class="node">
<title>Node6</title>
<g id="a_Node000006"><a xlink:href="classgridfire_1_1engine_1_1_network_priming_engine_view.html" target="_top" xlink:title="Provides a view of a DynamicEngine filtered to reactions involving a specified priming species.">
<polygon fill="white" stroke="#666666" points="619.38,-91.88 496.88,-91.88 496.88,-61.38 619.38,-61.38 619.38,-91.88"/>
<text xml:space="preserve" text-anchor="start" x="504.88" y="-78.38" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Network</text>
<text xml:space="preserve" text-anchor="middle" x="558.12" y="-67.12" font-family="Helvetica,sans-Serif" font-size="10.00">PrimingEngineView</text>
</a>
</g>
</g>
<!-- Node4&#45;&gt;Node6 -->
<g id="edge10_Node000004_Node000006" class="edge">
<title>Node4&#45;&gt;Node6</title>
<g id="a_edge10_Node000004_Node000006"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M454.43,-91.5C468.34,-89.48 482.84,-87.38 496.41,-85.42"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="454.32,-87.98 444.92,-92.87 455.32,-94.9 454.32,-87.98"/>
</a>
</g>
</g>
<!-- Node3 -->
<g id="Node000003" class="node">
<title>Node3</title>
<g id="a_Node000003"><a xlink:href="classgridfire_1_1engine_1_1_engine_view.html" target="_top" xlink:title=" ">
<polygon fill="white" stroke="#666666" points="276.5,-116.88 151.75,-116.88 151.75,-86.38 276.5,-86.38 276.5,-116.88"/>
<text xml:space="preserve" text-anchor="start" x="159.75" y="-103.38" font-family="Helvetica,sans-Serif" font-size="10.00">gridfire::engine::Engine</text>
<text xml:space="preserve" text-anchor="middle" x="214.12" y="-92.12" font-family="Helvetica,sans-Serif" font-size="10.00">View&lt; DynamicEngine &gt;</text>
</a>
</g>
</g>
<!-- Node3&#45;&gt;Node2 -->
<g id="edge13_Node000003_Node000002" class="edge">
<title>Node3&#45;&gt;Node2</title>
<g id="a_edge13_Node000003_Node000002"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M279.59,-120.5C295.82,-125.25 313.08,-130.3 328.73,-134.88"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="280.58,-117.14 270,-117.69 278.61,-123.86 280.58,-117.14"/>
</a>
</g>
</g>
<!-- Node3&#45;&gt;Node4 -->
<g id="edge14_Node000003_Node000004" class="edge">
<title>Node3&#45;&gt;Node4</title>
<g id="a_edge14_Node000003_Node000004"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M288.15,-101.62C299.94,-101.62 312.01,-101.62 323.41,-101.62"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="288.49,-98.13 278.49,-101.63 288.49,-105.13 288.49,-98.13"/>
</a>
</g>
</g>
<!-- Node3&#45;&gt;Node7 -->
<g id="edge15_Node000003_Node000007" class="edge">
<title>Node3&#45;&gt;Node7</title>
<g id="a_edge15_Node000003_Node000007"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M279.59,-82.75C295.82,-78 313.08,-72.95 328.73,-68.37"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="278.61,-79.39 270,-85.56 280.58,-86.11 278.61,-79.39"/>
<g id="a_edge16_Node000000_Node000001"><a xlink:title=" ">
<path fill="none" stroke="#63b8ff" d="M127.3,-20.88C135.33,-20.88 143.47,-20.88 151.35,-20.88"/>
<polygon fill="#63b8ff" stroke="#63b8ff" points="127.57,-17.38 117.57,-20.88 127.57,-24.38 127.57,-17.38"/>
</a>
</g>
</g>

Before

Width:  |  Height:  |  Size: 10 KiB

After

Width:  |  Height:  |  Size: 2.1 KiB