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Emily Boudreaux
2025-11-25 14:31:59 -05:00
parent b0c68a709f
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<p>This is the complete list of members for <a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a>, including all inherited members.</p> <p>This is the complete list of members for <a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a>, including all inherited members.</p>
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<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a09eb8874b0c687aacc84a7bc7a5e2330">calculateEpsDerivatives</a>(const fourdst::composition::Composition &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a6832a7898da51017a20f578e33cba729">calculateEpsDerivatives</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a8facba88b6df6e016ce53a0ff3cff125">calculateMolarReactionFlow</a>(const gridfire::reaction::Reaction &amp;reaction, const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a8facba88b6df6e016ce53a0ff3cff125">calculateMolarReactionFlow</a>(const gridfire::reaction::Reaction &amp;reaction, const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a339e7238d290665ae9823c701e0ba32e">calculateRHSAndEnergy</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#aac1f2005c0a58befc4e01627c9357924">calculateRHSAndEnergy</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a6c5397f57fb9e115495188a1d2296147">collectComposition</a>(fourdst::composition::Composition &amp;comp) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a239826d90cb5db236e68230f7ac84bcb">collectComposition</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2a63d0132254983a2143f31e863a5c18">generateJacobianMatrix</a>(const fourdst::composition::Composition &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a298f700c647d2c3973d2a35d370c823e">generateJacobianMatrix</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2c0a465848ed6da8d3aaef5f6824375d">generateJacobianMatrix</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho, const std::vector&lt; fourdst::atomic::Species &gt; &amp;activeSpecies) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2b1c054b250abccc2af9a7275c68df4a">generateJacobianMatrix</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho, const std::vector&lt; fourdst::atomic::Species &gt; &amp;activeSpecies) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a36f2dbd2278608fe8a4ef7f08d7e4963">generateJacobianMatrix</a>(const fourdst::composition::Composition &amp;comp, double T9, double rho, const gridfire::SparsityPattern &amp;sparsityPattern) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a204643754cac3cf37c550ecd32f659fe">generateJacobianMatrix</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho, const gridfire::engine::SparsityPattern &amp;sparsityPattern) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2066649ca11a869c054079ea12d8d0e9">generateStoichiometryMatrix</a>() override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2066649ca11a869c054079ea12d8d0e9">generateStoichiometryMatrix</a>() override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#adba68716d832b6100e08d32fbc36f13c">getDepth</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">inline</span></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a541cf022fe3253279f8f1309c10556d7">getDepth</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">inline</span><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a63bbe8f6d3849e99dd41b6d9613ff1f0">getJacobianMatrixEntry</a>(const fourdst::atomic::Species &amp;rowSpecies, const fourdst::atomic::Species &amp;colSpecies) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a1d5143640666631501cf229bc491516e">getNetworkReactions</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a1d5143640666631501cf229bc491516e">getNetworkReactions</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#afc745e7ab5da5d8b3cf916044515cd7d">getNetworkSpecies</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#afc745e7ab5da5d8b3cf916044515cd7d">getNetworkSpecies</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#ab4cfdca5e15957c5cef75ffa6dedeee5">getScreeningModel</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#ab4cfdca5e15957c5cef75ffa6dedeee5">getScreeningModel</a>() const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a8d34faa3d6ea804a3467979858d33535">getSpeciesDestructionTimescales</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a16c27e5af29ddf187e5ab82a6e6db57b">getSpeciesDestructionTimescales</a>(const fourdst::composition::Composition &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a95d10a7b240d543a1bc6c67ddf2dc8e0">getSpeciesIndex</a>(const fourdst::atomic::Species &amp;species) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a95d10a7b240d543a1bc6c67ddf2dc8e0">getSpeciesIndex</a>(const fourdst::atomic::Species &amp;species) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2947824dca9662e113153de5c6516609">getSpeciesStatus</a>(const fourdst::atomic::Species &amp;species) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a8bbf2956e0a3d01065c14e74cdc71626">getSpeciesTimescales</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a71678a567bb0cedd8a97aff9ceddd814">getSpeciesTimescales</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a3dd5cf419f25e76e144af35df15a2067">getStoichiometryMatrixEntry</a>(const fourdst::atomic::Species &amp;species, const gridfire::reaction::Reaction &amp;reaction) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a3dd5cf419f25e76e144af35df15a2067">getStoichiometryMatrixEntry</a>(const fourdst::atomic::Species &amp;species, const gridfire::reaction::Reaction &amp;reaction) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a55bf19ed7534a312a36faf74753f7b14">isStale</a>(const gridfire::NetIn &amp;netIn) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a55bf19ed7534a312a36faf74753f7b14">isStale</a>(const gridfire::NetIn &amp;netIn) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2246382b1c98ba69cdb419bba63a6d03">m_species_cache</a></td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">private</span></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a2246382b1c98ba69cdb419bba63a6d03">m_species_cache</a></td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">private</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a61bb4b430fe740cfb2c24e5cc673e4ac">mapNetInToMolarAbundanceVector</a>(const gridfire::NetIn &amp;netIn) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a61bb4b430fe740cfb2c24e5cc673e4ac">mapNetInToMolarAbundanceVector</a>(const gridfire::NetIn &amp;netIn) const override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#ac22a10412be6649bf379e6d61113c878">primeEngine</a>(const gridfire::NetIn &amp;netIn) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a6118af81e45d2850f7a2517891147274">primeEngine</a>(const gridfire::NetIn &amp;netIn) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a8e39a86c2ba1ac7f1669362554f07fcf">rebuild</a>(const fourdst::composition::CompositionAbstract &amp;comp, gridfire::BuildDepthType depth) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">inline</span></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#a25e52496b36d731127603c31e9dcaa97">rebuild</a>(const fourdst::composition::CompositionAbstract &amp;comp, gridfire::engine::BuildDepthType depth) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">inline</span><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#af469cba3be850d53f659ec173f0eb4e4">setNetworkReactions</a>(const gridfire::reaction::ReactionSet &amp;reactions) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#af469cba3be850d53f659ec173f0eb4e4">setNetworkReactions</a>(const gridfire::reaction::ReactionSet &amp;reactions) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#afa3abfd612033336a656f092721c14ac">setScreeningModel</a>(gridfire::screening::ScreeningType model) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#afa3abfd612033336a656f092721c14ac">setScreeningModel</a>(gridfire::screening::ScreeningType model) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#af8e6a8cd44f278535d7bcc9a896d6da8">update</a>(const gridfire::NetIn &amp;netIn) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_dynamic_engine.html#af8e6a8cd44f278535d7bcc9a896d6da8">update</a>(const gridfire::NetIn &amp;netIn) override</td><td class="entry"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1engine_1_1_engine.html#af0ea99416c28933d364a872fc6aff556">~Engine</a>()=default</td><td class="entry"><a class="el" href="classgridfire_1_1engine_1_1_engine.html">gridfire::engine::Engine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
</table></div><!-- contents --> </table></div><!-- contents -->
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@@ -29,7 +29,7 @@
<tbody> <tbody>
<tr id="projectrow"> <tr id="projectrow">
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<div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0-alpha</span> <div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0_rc1</span>
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Inheritance diagram for PyDynamicEngine:</div> Inheritance diagram for PyDynamicEngine:</div>
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Collaboration diagram for PyDynamicEngine:</div> Collaboration diagram for PyDynamicEngine:</div>
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<table class="memberdecls"> <table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pub-methods" name="pub-methods"></a> <tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pub-methods" name="pub-methods"></a>
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<tr class="memitem:afc745e7ab5da5d8b3cf916044515cd7d" id="r_afc745e7ab5da5d8b3cf916044515cd7d"><td class="memItemLeft" align="right" valign="top">const std::vector&lt; fourdst::atomic::Species &gt; &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#afc745e7ab5da5d8b3cf916044515cd7d">getNetworkSpecies</a> () const override</td></tr> <tr class="memitem:afc745e7ab5da5d8b3cf916044515cd7d" id="r_afc745e7ab5da5d8b3cf916044515cd7d"><td class="memItemLeft" align="right" valign="top">const std::vector&lt; fourdst::atomic::Species &gt; &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#afc745e7ab5da5d8b3cf916044515cd7d">getNetworkSpecies</a> () const override</td></tr>
<tr class="memdesc:afc745e7ab5da5d8b3cf916044515cd7d"><td class="mdescLeft">&#160;</td><td class="mdescRight"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a> Implementation ///. <br /></td></tr> <tr class="memdesc:afc745e7ab5da5d8b3cf916044515cd7d"><td class="mdescLeft">&#160;</td><td class="mdescRight"><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a> Implementation ///. <br /></td></tr>
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<tr class="memitem:a339e7238d290665ae9823c701e0ba32e" id="r_a339e7238d290665ae9823c701e0ba32e"><td class="memItemLeft" align="right" valign="top">std::expected&lt; gridfire::StepDerivatives&lt; double &gt;, gridfire::expectations::StaleEngineError &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a339e7238d290665ae9823c701e0ba32e">calculateRHSAndEnergy</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr> <tr class="memitem:aac1f2005c0a58befc4e01627c9357924" id="r_aac1f2005c0a58befc4e01627c9357924"><td class="memItemLeft" align="right" valign="top">std::expected&lt; <a class="el" href="structgridfire_1_1engine_1_1_step_derivatives.html">gridfire::engine::StepDerivatives</a>&lt; double &gt;, <a class="el" href="namespacegridfire_1_1engine.html#a4d057e41b489bf20744dfa8d2958ad5a">gridfire::engine::EngineStatus</a> &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#aac1f2005c0a58befc4e01627c9357924">calculateRHSAndEnergy</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="separator:a339e7238d290665ae9823c701e0ba32e"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memdesc:aac1f2005c0a58befc4e01627c9357924"><td class="mdescLeft">&#160;</td><td class="mdescRight">Calculate the right-hand side (dY/dt) and energy generation. <br /></td></tr>
<tr class="memitem:a2a63d0132254983a2143f31e863a5c18" id="r_a2a63d0132254983a2143f31e863a5c18"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2a63d0132254983a2143f31e863a5c18">generateJacobianMatrix</a> (const fourdst::composition::Composition &amp;comp, double T9, double rho) const override</td></tr> <tr class="separator:aac1f2005c0a58befc4e01627c9357924"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="separator:a2a63d0132254983a2143f31e863a5c18"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memitem:a298f700c647d2c3973d2a35d370c823e" id="r_a298f700c647d2c3973d2a35d370c823e"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classgridfire_1_1engine_1_1_network_jacobian.html">gridfire::engine::NetworkJacobian</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a298f700c647d2c3973d2a35d370c823e">generateJacobianMatrix</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="memitem:a2c0a465848ed6da8d3aaef5f6824375d" id="r_a2c0a465848ed6da8d3aaef5f6824375d"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2c0a465848ed6da8d3aaef5f6824375d">generateJacobianMatrix</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho, const std::vector&lt; fourdst::atomic::Species &gt; &amp;activeSpecies) const override</td></tr> <tr class="memdesc:a298f700c647d2c3973d2a35d370c823e"><td class="mdescLeft">&#160;</td><td class="mdescRight">Generate the Jacobian matrix for the current state. <br /></td></tr>
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<tr class="memitem:a36f2dbd2278608fe8a4ef7f08d7e4963" id="r_a36f2dbd2278608fe8a4ef7f08d7e4963"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a36f2dbd2278608fe8a4ef7f08d7e4963">generateJacobianMatrix</a> (const fourdst::composition::Composition &amp;comp, double T9, double rho, const gridfire::SparsityPattern &amp;sparsityPattern) const override</td></tr> <tr class="memitem:a2b1c054b250abccc2af9a7275c68df4a" id="r_a2b1c054b250abccc2af9a7275c68df4a"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classgridfire_1_1engine_1_1_network_jacobian.html">gridfire::engine::NetworkJacobian</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2b1c054b250abccc2af9a7275c68df4a">generateJacobianMatrix</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho, const std::vector&lt; fourdst::atomic::Species &gt; &amp;activeSpecies) const override</td></tr>
<tr class="separator:a36f2dbd2278608fe8a4ef7f08d7e4963"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memdesc:a2b1c054b250abccc2af9a7275c68df4a"><td class="mdescLeft">&#160;</td><td class="mdescRight">Generate the Jacobian matrix for the current state using a subset of active species. <br /></td></tr>
<tr class="memitem:a63bbe8f6d3849e99dd41b6d9613ff1f0" id="r_a63bbe8f6d3849e99dd41b6d9613ff1f0"><td class="memItemLeft" align="right" valign="top">double&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a63bbe8f6d3849e99dd41b6d9613ff1f0">getJacobianMatrixEntry</a> (const fourdst::atomic::Species &amp;rowSpecies, const fourdst::atomic::Species &amp;colSpecies) const override</td></tr> <tr class="separator:a2b1c054b250abccc2af9a7275c68df4a"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="separator:a63bbe8f6d3849e99dd41b6d9613ff1f0"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memitem:a204643754cac3cf37c550ecd32f659fe" id="r_a204643754cac3cf37c550ecd32f659fe"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classgridfire_1_1engine_1_1_network_jacobian.html">gridfire::engine::NetworkJacobian</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a204643754cac3cf37c550ecd32f659fe">generateJacobianMatrix</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho, const <a class="el" href="namespacegridfire_1_1engine.html#a9de1791ec719c0a9b76b835703336870">gridfire::engine::SparsityPattern</a> &amp;sparsityPattern) const override</td></tr>
<tr class="memdesc:a204643754cac3cf37c550ecd32f659fe"><td class="mdescLeft">&#160;</td><td class="mdescRight">Generate the Jacobian matrix for the current state with a specified sparsity pattern. <br /></td></tr>
<tr class="separator:a204643754cac3cf37c550ecd32f659fe"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a2066649ca11a869c054079ea12d8d0e9" id="r_a2066649ca11a869c054079ea12d8d0e9"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2066649ca11a869c054079ea12d8d0e9">generateStoichiometryMatrix</a> () override</td></tr> <tr class="memitem:a2066649ca11a869c054079ea12d8d0e9" id="r_a2066649ca11a869c054079ea12d8d0e9"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2066649ca11a869c054079ea12d8d0e9">generateStoichiometryMatrix</a> () override</td></tr>
<tr class="memdesc:a2066649ca11a869c054079ea12d8d0e9"><td class="mdescLeft">&#160;</td><td class="mdescRight">Generate the stoichiometry matrix for the network. <br /></td></tr>
<tr class="separator:a2066649ca11a869c054079ea12d8d0e9"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:a2066649ca11a869c054079ea12d8d0e9"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a3dd5cf419f25e76e144af35df15a2067" id="r_a3dd5cf419f25e76e144af35df15a2067"><td class="memItemLeft" align="right" valign="top">int&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a3dd5cf419f25e76e144af35df15a2067">getStoichiometryMatrixEntry</a> (const fourdst::atomic::Species &amp;species, const <a class="el" href="classgridfire_1_1reaction_1_1_reaction.html">gridfire::reaction::Reaction</a> &amp;reaction) const override</td></tr> <tr class="memitem:a3dd5cf419f25e76e144af35df15a2067" id="r_a3dd5cf419f25e76e144af35df15a2067"><td class="memItemLeft" align="right" valign="top">int&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a3dd5cf419f25e76e144af35df15a2067">getStoichiometryMatrixEntry</a> (const fourdst::atomic::Species &amp;species, const <a class="el" href="classgridfire_1_1reaction_1_1_reaction.html">gridfire::reaction::Reaction</a> &amp;reaction) const override</td></tr>
<tr class="memdesc:a3dd5cf419f25e76e144af35df15a2067"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get an entry from the stoichiometry matrix. <br /></td></tr>
<tr class="separator:a3dd5cf419f25e76e144af35df15a2067"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:a3dd5cf419f25e76e144af35df15a2067"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a8facba88b6df6e016ce53a0ff3cff125" id="r_a8facba88b6df6e016ce53a0ff3cff125"><td class="memItemLeft" align="right" valign="top">double&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8facba88b6df6e016ce53a0ff3cff125">calculateMolarReactionFlow</a> (const <a class="el" href="classgridfire_1_1reaction_1_1_reaction.html">gridfire::reaction::Reaction</a> &amp;reaction, const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr> <tr class="memitem:a8facba88b6df6e016ce53a0ff3cff125" id="r_a8facba88b6df6e016ce53a0ff3cff125"><td class="memItemLeft" align="right" valign="top">double&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8facba88b6df6e016ce53a0ff3cff125">calculateMolarReactionFlow</a> (const <a class="el" href="classgridfire_1_1reaction_1_1_reaction.html">gridfire::reaction::Reaction</a> &amp;reaction, const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="memdesc:a8facba88b6df6e016ce53a0ff3cff125"><td class="mdescLeft">&#160;</td><td class="mdescRight">Calculate the molar reaction flow for a given reaction. <br /></td></tr>
<tr class="separator:a8facba88b6df6e016ce53a0ff3cff125"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:a8facba88b6df6e016ce53a0ff3cff125"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a1d5143640666631501cf229bc491516e" id="r_a1d5143640666631501cf229bc491516e"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a1d5143640666631501cf229bc491516e">getNetworkReactions</a> () const override</td></tr> <tr class="memitem:a1d5143640666631501cf229bc491516e" id="r_a1d5143640666631501cf229bc491516e"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a1d5143640666631501cf229bc491516e">getNetworkReactions</a> () const override</td></tr>
<tr class="memdesc:a1d5143640666631501cf229bc491516e"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get the set of logical reactions in the network. <br /></td></tr>
<tr class="separator:a1d5143640666631501cf229bc491516e"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:a1d5143640666631501cf229bc491516e"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:af469cba3be850d53f659ec173f0eb4e4" id="r_af469cba3be850d53f659ec173f0eb4e4"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#af469cba3be850d53f659ec173f0eb4e4">setNetworkReactions</a> (const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp;reactions) override</td></tr> <tr class="memitem:af469cba3be850d53f659ec173f0eb4e4" id="r_af469cba3be850d53f659ec173f0eb4e4"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#af469cba3be850d53f659ec173f0eb4e4">setNetworkReactions</a> (const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp;reactions) override</td></tr>
<tr class="memdesc:af469cba3be850d53f659ec173f0eb4e4"><td class="mdescLeft">&#160;</td><td class="mdescRight">Set the reactions for the network. <br /></td></tr>
<tr class="separator:af469cba3be850d53f659ec173f0eb4e4"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:af469cba3be850d53f659ec173f0eb4e4"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a8bbf2956e0a3d01065c14e74cdc71626" id="r_a8bbf2956e0a3d01065c14e74cdc71626"><td class="memItemLeft" align="right" valign="top">std::expected&lt; std::unordered_map&lt; fourdst::atomic::Species, double &gt;, gridfire::expectations::StaleEngineError &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8bbf2956e0a3d01065c14e74cdc71626">getSpeciesTimescales</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr> <tr class="memitem:a71678a567bb0cedd8a97aff9ceddd814" id="r_a71678a567bb0cedd8a97aff9ceddd814"><td class="memItemLeft" align="right" valign="top">std::expected&lt; std::unordered_map&lt; fourdst::atomic::Species, double &gt;, <a class="el" href="namespacegridfire_1_1engine.html#a4d057e41b489bf20744dfa8d2958ad5a">gridfire::engine::EngineStatus</a> &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a71678a567bb0cedd8a97aff9ceddd814">getSpeciesTimescales</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="separator:a8bbf2956e0a3d01065c14e74cdc71626"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memdesc:a71678a567bb0cedd8a97aff9ceddd814"><td class="mdescLeft">&#160;</td><td class="mdescRight">Compute timescales for all species in the network. <br /></td></tr>
<tr class="memitem:a16c27e5af29ddf187e5ab82a6e6db57b" id="r_a16c27e5af29ddf187e5ab82a6e6db57b"><td class="memItemLeft" align="right" valign="top">std::expected&lt; std::unordered_map&lt; fourdst::atomic::Species, double &gt;, gridfire::expectations::StaleEngineError &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a16c27e5af29ddf187e5ab82a6e6db57b">getSpeciesDestructionTimescales</a> (const fourdst::composition::Composition &amp;comp, double T9, double rho) const override</td></tr> <tr class="separator:a71678a567bb0cedd8a97aff9ceddd814"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="separator:a16c27e5af29ddf187e5ab82a6e6db57b"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memitem:a8d34faa3d6ea804a3467979858d33535" id="r_a8d34faa3d6ea804a3467979858d33535"><td class="memItemLeft" align="right" valign="top">std::expected&lt; std::unordered_map&lt; fourdst::atomic::Species, double &gt;, <a class="el" href="namespacegridfire_1_1engine.html#a4d057e41b489bf20744dfa8d2958ad5a">gridfire::engine::EngineStatus</a> &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8d34faa3d6ea804a3467979858d33535">getSpeciesDestructionTimescales</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="memdesc:a8d34faa3d6ea804a3467979858d33535"><td class="mdescLeft">&#160;</td><td class="mdescRight">Compute destruction timescales for all species in the network. <br /></td></tr>
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<tr class="memitem:af8e6a8cd44f278535d7bcc9a896d6da8" id="r_af8e6a8cd44f278535d7bcc9a896d6da8"><td class="memItemLeft" align="right" valign="top">fourdst::composition::Composition&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#af8e6a8cd44f278535d7bcc9a896d6da8">update</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr> <tr class="memitem:af8e6a8cd44f278535d7bcc9a896d6da8" id="r_af8e6a8cd44f278535d7bcc9a896d6da8"><td class="memItemLeft" align="right" valign="top">fourdst::composition::Composition&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#af8e6a8cd44f278535d7bcc9a896d6da8">update</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr>
<tr class="memdesc:af8e6a8cd44f278535d7bcc9a896d6da8"><td class="mdescLeft">&#160;</td><td class="mdescRight">Update the internal state of the engine. <br /></td></tr>
<tr class="separator:af8e6a8cd44f278535d7bcc9a896d6da8"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:af8e6a8cd44f278535d7bcc9a896d6da8"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a55bf19ed7534a312a36faf74753f7b14" id="r_a55bf19ed7534a312a36faf74753f7b14"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a55bf19ed7534a312a36faf74753f7b14">isStale</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr> <tr class="memitem:a55bf19ed7534a312a36faf74753f7b14" id="r_a55bf19ed7534a312a36faf74753f7b14"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a55bf19ed7534a312a36faf74753f7b14">isStale</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr>
<tr class="memdesc:a55bf19ed7534a312a36faf74753f7b14"><td class="mdescLeft">&#160;</td><td class="mdescRight">Check if the engine's internal state is stale. <br /></td></tr>
<tr class="separator:a55bf19ed7534a312a36faf74753f7b14"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:a55bf19ed7534a312a36faf74753f7b14"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:afa3abfd612033336a656f092721c14ac" id="r_afa3abfd612033336a656f092721c14ac"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#afa3abfd612033336a656f092721c14ac">setScreeningModel</a> (<a class="el" href="namespacegridfire_1_1screening.html#aa82aafbc4f8c28d0a75b60798e3a7d25">gridfire::screening::ScreeningType</a> model) override</td></tr> <tr class="memitem:afa3abfd612033336a656f092721c14ac" id="r_afa3abfd612033336a656f092721c14ac"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#afa3abfd612033336a656f092721c14ac">setScreeningModel</a> (<a class="el" href="namespacegridfire_1_1screening.html#aa82aafbc4f8c28d0a75b60798e3a7d25">gridfire::screening::ScreeningType</a> model) override</td></tr>
<tr class="memdesc:afa3abfd612033336a656f092721c14ac"><td class="mdescLeft">&#160;</td><td class="mdescRight">Set the electron screening model. <br /></td></tr>
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<tr class="memitem:ab4cfdca5e15957c5cef75ffa6dedeee5" id="r_ab4cfdca5e15957c5cef75ffa6dedeee5"><td class="memItemLeft" align="right" valign="top"><a class="el" href="namespacegridfire_1_1screening.html#aa82aafbc4f8c28d0a75b60798e3a7d25">gridfire::screening::ScreeningType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#ab4cfdca5e15957c5cef75ffa6dedeee5">getScreeningModel</a> () const override</td></tr> <tr class="memitem:ab4cfdca5e15957c5cef75ffa6dedeee5" id="r_ab4cfdca5e15957c5cef75ffa6dedeee5"><td class="memItemLeft" align="right" valign="top"><a class="el" href="namespacegridfire_1_1screening.html#aa82aafbc4f8c28d0a75b60798e3a7d25">gridfire::screening::ScreeningType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#ab4cfdca5e15957c5cef75ffa6dedeee5">getScreeningModel</a> () const override</td></tr>
<tr class="memdesc:ab4cfdca5e15957c5cef75ffa6dedeee5"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get the current electron screening model. <br /></td></tr>
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<tr class="memitem:a95d10a7b240d543a1bc6c67ddf2dc8e0" id="r_a95d10a7b240d543a1bc6c67ddf2dc8e0"><td class="memItemLeft" align="right" valign="top">size_t&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a95d10a7b240d543a1bc6c67ddf2dc8e0">getSpeciesIndex</a> (const fourdst::atomic::Species &amp;species) const override</td></tr> <tr class="memitem:a95d10a7b240d543a1bc6c67ddf2dc8e0" id="r_a95d10a7b240d543a1bc6c67ddf2dc8e0"><td class="memItemLeft" align="right" valign="top">size_t&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a95d10a7b240d543a1bc6c67ddf2dc8e0">getSpeciesIndex</a> (const fourdst::atomic::Species &amp;species) const override</td></tr>
<tr class="memdesc:a95d10a7b240d543a1bc6c67ddf2dc8e0"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get the index of a species in the network. <br /></td></tr>
<tr class="separator:a95d10a7b240d543a1bc6c67ddf2dc8e0"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:a95d10a7b240d543a1bc6c67ddf2dc8e0"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a61bb4b430fe740cfb2c24e5cc673e4ac" id="r_a61bb4b430fe740cfb2c24e5cc673e4ac"><td class="memItemLeft" align="right" valign="top">std::vector&lt; double &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a61bb4b430fe740cfb2c24e5cc673e4ac">mapNetInToMolarAbundanceVector</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) const override</td></tr> <tr class="memitem:a61bb4b430fe740cfb2c24e5cc673e4ac" id="r_a61bb4b430fe740cfb2c24e5cc673e4ac"><td class="memItemLeft" align="right" valign="top">std::vector&lt; double &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a61bb4b430fe740cfb2c24e5cc673e4ac">mapNetInToMolarAbundanceVector</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) const override</td></tr>
<tr class="memdesc:a61bb4b430fe740cfb2c24e5cc673e4ac"><td class="mdescLeft">&#160;</td><td class="mdescRight">Map a NetIn object to a vector of molar abundances. <br /></td></tr>
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<tr class="memitem:ac22a10412be6649bf379e6d61113c878" id="r_ac22a10412be6649bf379e6d61113c878"><td class="memItemLeft" align="right" valign="top">gridfire::PrimingReport&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#ac22a10412be6649bf379e6d61113c878">primeEngine</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr> <tr class="memitem:a6118af81e45d2850f7a2517891147274" id="r_a6118af81e45d2850f7a2517891147274"><td class="memItemLeft" align="right" valign="top"><a class="el" href="structgridfire_1_1engine_1_1_priming_report.html">gridfire::engine::PrimingReport</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a6118af81e45d2850f7a2517891147274">primeEngine</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr>
<tr class="separator:ac22a10412be6649bf379e6d61113c878"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memdesc:a6118af81e45d2850f7a2517891147274"><td class="mdescLeft">&#160;</td><td class="mdescRight">Prime the engine with initial conditions. <br /></td></tr>
<tr class="memitem:adba68716d832b6100e08d32fbc36f13c" id="r_adba68716d832b6100e08d32fbc36f13c"><td class="memItemLeft" align="right" valign="top">gridfire::BuildDepthType&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#adba68716d832b6100e08d32fbc36f13c">getDepth</a> () const override</td></tr> <tr class="separator:a6118af81e45d2850f7a2517891147274"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="separator:adba68716d832b6100e08d32fbc36f13c"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memitem:a541cf022fe3253279f8f1309c10556d7" id="r_a541cf022fe3253279f8f1309c10556d7"><td class="memItemLeft" align="right" valign="top"><a class="el" href="namespacegridfire_1_1engine.html#a55cd7c313bbfafd5b6a1bcd6329ed99b">gridfire::engine::BuildDepthType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a541cf022fe3253279f8f1309c10556d7">getDepth</a> () const override</td></tr>
<tr class="memitem:a8e39a86c2ba1ac7f1669362554f07fcf" id="r_a8e39a86c2ba1ac7f1669362554f07fcf"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8e39a86c2ba1ac7f1669362554f07fcf">rebuild</a> (const fourdst::composition::CompositionAbstract &amp;comp, gridfire::BuildDepthType depth) override</td></tr> <tr class="memdesc:a541cf022fe3253279f8f1309c10556d7"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get the depth of the network. <br /></td></tr>
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<tr class="memitem:a09eb8874b0c687aacc84a7bc7a5e2330" id="r_a09eb8874b0c687aacc84a7bc7a5e2330"><td class="memItemLeft" align="right" valign="top">gridfire::EnergyDerivatives&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a09eb8874b0c687aacc84a7bc7a5e2330">calculateEpsDerivatives</a> (const fourdst::composition::Composition &amp;comp, double T9, double rho) const override</td></tr> <tr class="memitem:a25e52496b36d731127603c31e9dcaa97" id="r_a25e52496b36d731127603c31e9dcaa97"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a25e52496b36d731127603c31e9dcaa97">rebuild</a> (const fourdst::composition::CompositionAbstract &amp;comp, <a class="el" href="namespacegridfire_1_1engine.html#a55cd7c313bbfafd5b6a1bcd6329ed99b">gridfire::engine::BuildDepthType</a> depth) override</td></tr>
<tr class="separator:a09eb8874b0c687aacc84a7bc7a5e2330"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memdesc:a25e52496b36d731127603c31e9dcaa97"><td class="mdescLeft">&#160;</td><td class="mdescRight">Rebuild the network with a specified depth. <br /></td></tr>
<tr class="memitem:a6c5397f57fb9e115495188a1d2296147" id="r_a6c5397f57fb9e115495188a1d2296147"><td class="memItemLeft" align="right" valign="top">fourdst::composition::Composition&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a6c5397f57fb9e115495188a1d2296147">collectComposition</a> (fourdst::composition::Composition &amp;comp) const override</td></tr> <tr class="separator:a25e52496b36d731127603c31e9dcaa97"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="separator:a6c5397f57fb9e115495188a1d2296147"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memitem:a6832a7898da51017a20f578e33cba729" id="r_a6832a7898da51017a20f578e33cba729"><td class="memItemLeft" align="right" valign="top"><a class="el" href="structgridfire_1_1engine_1_1_energy_derivatives.html">gridfire::engine::EnergyDerivatives</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a6832a7898da51017a20f578e33cba729">calculateEpsDerivatives</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="memdesc:a6832a7898da51017a20f578e33cba729"><td class="mdescLeft">&#160;</td><td class="mdescRight">Calculate the derivatives of the energy generation rate with respect to T and rho. <br /></td></tr>
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<tr class="memitem:a239826d90cb5db236e68230f7ac84bcb" id="r_a239826d90cb5db236e68230f7ac84bcb"><td class="memItemLeft" align="right" valign="top">fourdst::composition::Composition&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a239826d90cb5db236e68230f7ac84bcb">collectComposition</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="memdesc:a239826d90cb5db236e68230f7ac84bcb"><td class="mdescLeft">&#160;</td><td class="mdescRight">Recursively collect composition from current engine and any sub engines if they exist. <br /></td></tr>
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<tr class="memitem:a2947824dca9662e113153de5c6516609" id="r_a2947824dca9662e113153de5c6516609"><td class="memItemLeft" align="right" valign="top"><a class="el" href="namespacegridfire_1_1engine.html#a83c9d755597668bba3cf00cd0ea10ee3">gridfire::engine::SpeciesStatus</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2947824dca9662e113153de5c6516609">getSpeciesStatus</a> (const fourdst::atomic::Species &amp;species) const override</td></tr>
<tr class="memdesc:a2947824dca9662e113153de5c6516609"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get the status of a species in the network. <br /></td></tr>
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<tr class="inherit_header pub_methods_classgridfire_1_1engine_1_1_engine"><td colspan="2" onclick="javascript:dynsection.toggleInherit('pub_methods_classgridfire_1_1engine_1_1_engine')"><img src="closed.png" alt="-"/>&#160;Public Member Functions inherited from <a class="el" href="classgridfire_1_1engine_1_1_engine.html">gridfire::engine::Engine</a></td></tr>
<tr class="memitem:af0ea99416c28933d364a872fc6aff556 inherit pub_methods_classgridfire_1_1engine_1_1_engine" id="r_af0ea99416c28933d364a872fc6aff556"><td class="memItemLeft" align="right" valign="top">virtual&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1engine_1_1_engine.html#af0ea99416c28933d364a872fc6aff556">~Engine</a> ()=default</td></tr>
<tr class="memdesc:af0ea99416c28933d364a872fc6aff556 inherit pub_methods_classgridfire_1_1engine_1_1_engine"><td class="mdescLeft">&#160;</td><td class="mdescRight">Virtual destructor. <br /></td></tr>
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<h2 class="groupheader">Member Function Documentation</h2> <h2 class="groupheader">Member Function Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#a09eb8874b0c687aacc84a7bc7a5e2330">&#9670;&#160;</a></span>calculateEpsDerivatives()</h2> <h2 class="memtitle"><span class="permalink"><a href="#a6832a7898da51017a20f578e33cba729">&#9670;&#160;</a></span>calculateEpsDerivatives()</h2>
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<td class="memname">gridfire::EnergyDerivatives PyDynamicEngine::calculateEpsDerivatives </td> <td class="memname"><a class="el" href="structgridfire_1_1engine_1_1_energy_derivatives.html">gridfire::engine::EnergyDerivatives</a> PyDynamicEngine::calculateEpsDerivatives </td>
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<td class="paramtype">const fourdst::composition::Composition &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td> <td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td>
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<p>Calculate the derivatives of the energy generation rate with respect to T and rho. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
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<dl class="section return"><dt>Returns</dt><dd>EnergyDerivatives containing dEps/dT and dEps/dRho.</dd></dl>
<p>This method computes the partial derivatives of the specific nuclear energy generation rate with respect to temperature and density for the current state. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#ada6a1295a92c2aede841672ecae0cede">gridfire::engine::DynamicEngine</a>.</p>
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<p>Calculate the molar reaction flow for a given reaction. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">reaction</td><td>The reaction for which to calculate the flow. </td></tr>
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
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<dl class="section return"><dt>Returns</dt><dd>Molar flow rate for the reaction (e.g., mol/g/s).</dd></dl>
<p>This method computes the net rate at which the given reaction proceeds under the current state. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#aa57fa5e58b98a03fba31bcddda8001d4">gridfire::engine::DynamicEngine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a339e7238d290665ae9823c701e0ba32e">&#9670;&#160;</a></span>calculateRHSAndEnergy()</h2> <h2 class="memtitle"><span class="permalink"><a href="#aac1f2005c0a58befc4e01627c9357924">&#9670;&#160;</a></span>calculateRHSAndEnergy()</h2>
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<td class="memname">std::expected&lt; gridfire::StepDerivatives&lt; double &gt;, gridfire::expectations::StaleEngineError &gt; PyDynamicEngine::calculateRHSAndEnergy </td> <td class="memname">std::expected&lt; <a class="el" href="structgridfire_1_1engine_1_1_step_derivatives.html">gridfire::engine::StepDerivatives</a>&lt; double &gt;, <a class="el" href="namespacegridfire_1_1engine.html#a4d057e41b489bf20744dfa8d2958ad5a">gridfire::engine::EngineStatus</a> &gt; PyDynamicEngine::calculateRHSAndEnergy </td>
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<td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td> <td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td>
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<p>Calculate the right-hand side (dY/dt) and energy generation. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
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<dl class="section return"><dt>Returns</dt><dd>expected&lt;StepDerivatives&lt;double&gt;&gt; containing either dY/dt and energy generation rate or a stale engine error indicating that the engine must be updated</dd></dl>
<p>This function must be implemented by derived classes to compute the time derivatives of all species and the specific nuclear energy generation rate for the current state. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_engine.html#a764fc091c72c12c8529105d7c96badb2">gridfire::engine::Engine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a6c5397f57fb9e115495188a1d2296147">&#9670;&#160;</a></span>collectComposition()</h2> <h2 class="memtitle"><span class="permalink"><a href="#a239826d90cb5db236e68230f7ac84bcb">&#9670;&#160;</a></span>collectComposition()</h2>
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<td class="memname">fourdst::composition::Composition PyDynamicEngine::collectComposition </td> <td class="memname">fourdst::composition::Composition PyDynamicEngine::collectComposition </td>
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<h2 class="memtitle"><span class="permalink"><a href="#a2a63d0132254983a2143f31e863a5c18">&#9670;&#160;</a></span>generateJacobianMatrix() <span class="overload">[1/3]</span></h2>
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<td class="memname">void PyDynamicEngine::generateJacobianMatrix </td>
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<p>Recursively collect composition from current engine and any sub engines if they exist. </p>
<p>If species i is defined in comp and in any sub engine or self composition then the molar abundance of species i in the returned composition will be that defined in comp. If there are species defined in sub engine compositions which are not defined in comp then their molar abundances will be based on the reported values from each sub engine. </p><dl class="section note"><dt>Note</dt><dd>It is up to each engine to decide how to handle filling in the return composition. </dd>
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These methods return an unfinalized composition which must then be finalized by the caller </dd></dl>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Input composition to "normalize". </td></tr>
<tr><td class="paramname">T9</td><td></td></tr>
<tr><td class="paramname">rho</td><td></td></tr>
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<dl class="section return"><dt>Returns</dt><dd>An updated composition which is a superset of comp. This may contain species which were culled, for example, by either QSE partitioning or reaction flow rate culling </dd></dl>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a41877719ae5e8de53c1692c7cf9bfbfc">gridfire::engine::DynamicEngine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a36f2dbd2278608fe8a4ef7f08d7e4963">&#9670;&#160;</a></span>generateJacobianMatrix() <span class="overload">[2/3]</span></h2> <h2 class="memtitle"><span class="permalink"><a href="#a298f700c647d2c3973d2a35d370c823e">&#9670;&#160;</a></span>generateJacobianMatrix() <span class="overload">[1/3]</span></h2>
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<td class="memname">void PyDynamicEngine::generateJacobianMatrix </td> <td class="memname"><a class="el" href="classgridfire_1_1engine_1_1_network_jacobian.html">gridfire::engine::NetworkJacobian</a> PyDynamicEngine::generateJacobianMatrix </td>
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<td class="paramtype">const fourdst::composition::Composition &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td> <td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td>
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<td class="paramtype">double</td> <td class="paramname"><span class="paramname"><em>rho</em></span>&#160;) const</td>
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<p>Generate the Jacobian matrix for the current state. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3.</td></tr>
</table>
</dd>
</dl>
<p>This method must compute and store the Jacobian matrix (∂(dY/dt)_i/∂Y_j) for the current state. The matrix can then be accessed via getJacobianMatrixEntry(). </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a53276f09346b531f8676db355e1219eb">gridfire::engine::DynamicEngine</a>.</p>
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<td class="memname"><a class="el" href="classgridfire_1_1engine_1_1_network_jacobian.html">gridfire::engine::NetworkJacobian</a> PyDynamicEngine::generateJacobianMatrix </td>
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<td class="paramtype">const gridfire::SparsityPattern &amp;</td> <td class="paramname"><span class="paramname"><em>sparsityPattern</em></span>&#160;) const</td> <td class="paramtype">const <a class="el" href="namespacegridfire_1_1engine.html#a9de1791ec719c0a9b76b835703336870">gridfire::engine::SparsityPattern</a> &amp;</td> <td class="paramname"><span class="paramname"><em>sparsityPattern</em></span>&#160;) const</td>
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<p>Generate the Jacobian matrix for the current state with a specified sparsity pattern. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
<tr><td class="paramname">sparsityPattern</td><td>The sparsity pattern to use for the Jacobian matrix.</td></tr>
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<p>This method must compute and store the Jacobian matrix (∂(dY/dt)_i/∂Y_j) for the current state using automatic differentiation, taking into account the provided sparsity pattern. The matrix can then be accessed via <code>getJacobianMatrixEntry()</code>.</p>
<dl class="section see"><dt>See also</dt><dd>getJacobianMatrixEntry() </dd></dl>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a51d55a21be28e372021b2b8e5ecdc551">gridfire::engine::DynamicEngine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a2c0a465848ed6da8d3aaef5f6824375d">&#9670;&#160;</a></span>generateJacobianMatrix() <span class="overload">[3/3]</span></h2> <h2 class="memtitle"><span class="permalink"><a href="#a2b1c054b250abccc2af9a7275c68df4a">&#9670;&#160;</a></span>generateJacobianMatrix() <span class="overload">[3/3]</span></h2>
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<td class="memname">void PyDynamicEngine::generateJacobianMatrix </td> <td class="memname"><a class="el" href="classgridfire_1_1engine_1_1_network_jacobian.html">gridfire::engine::NetworkJacobian</a> PyDynamicEngine::generateJacobianMatrix </td>
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<td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td> <td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td>
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<p>Generate the Jacobian matrix for the current state using a subset of active species. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
<tr><td class="paramname">activeSpecies</td><td>The set of species to include in the Jacobian calculation.</td></tr>
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<p>This method must compute and store the Jacobian matrix (∂(dY/dt)_i/∂Y_j) for the current state, considering only the specified subset of active species. The matrix can then be accessed via getJacobianMatrixEntry(). </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a15d53dac8b622a3b7d0f928a3995dbde">gridfire::engine::DynamicEngine</a>.</p>
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<p>Generate the stoichiometry matrix for the network. </p>
<p>This method must compute and store the stoichiometry matrix, which encodes the net change of each species in each reaction. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a5e2c45a3e415b53e41def8f743f93464">gridfire::engine::DynamicEngine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#adba68716d832b6100e08d32fbc36f13c">&#9670;&#160;</a></span>getDepth()</h2> <h2 class="memtitle"><span class="permalink"><a href="#a541cf022fe3253279f8f1309c10556d7">&#9670;&#160;</a></span>getDepth()</h2>
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<td class="memname">gridfire::BuildDepthType PyDynamicEngine::getDepth </td> <td class="memname"><a class="el" href="namespacegridfire_1_1engine.html#a55cd7c313bbfafd5b6a1bcd6329ed99b">gridfire::engine::BuildDepthType</a> PyDynamicEngine::getDepth </td>
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</div> <p>Get the depth of the network. </p>
</div> <dl class="section return"><dt>Returns</dt><dd>The depth of the network, which may indicate the level of detail or complexity in the reaction network.</dd></dl>
<a id="a63bbe8f6d3849e99dd41b6d9613ff1f0" name="a63bbe8f6d3849e99dd41b6d9613ff1f0"></a> <p>This method is intended to provide information about the network's structure, such as how many layers of reactions or species are present. It can be useful for diagnostics and understanding the network's complexity. </p>
<h2 class="memtitle"><span class="permalink"><a href="#a63bbe8f6d3849e99dd41b6d9613ff1f0">&#9670;&#160;</a></span>getJacobianMatrixEntry()</h2>
<div class="memitem"> <p>Reimplemented from <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#ac5a0def6b6af0bd93bf9057c25f048ff">gridfire::engine::DynamicEngine</a>.</p>
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<td class="memname">double PyDynamicEngine::getJacobianMatrixEntry </td>
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<p>Get the set of logical reactions in the network. </p>
<dl class="section return"><dt>Returns</dt><dd>Reference to the LogicalReactionSet containing all reactions. </dd></dl>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a26b59a4c7622bf820c0eeec6a7522aa8">gridfire::engine::DynamicEngine</a>.</p>
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<p><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a> Implementation ///. </p> <p><a class="el" href="class_py_dynamic_engine.html">PyDynamicEngine</a> Implementation ///. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_engine.html#a3263c3fde2509d5d8ec4da3b6e946c48">gridfire::engine::Engine</a>.</p>
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<p>Get the current electron screening model. </p>
<dl class="section return"><dt>Returns</dt><dd>The currently active screening model type.</dd></dl>
<dl class="section user"><dt>Usage Example:</dt><dd><div class="fragment"><div class="line">screening::ScreeningType currentModel = myEngine.getScreeningModel();</div>
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<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a24103027a38e02d4342161164554d332">gridfire::engine::DynamicEngine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a16c27e5af29ddf187e5ab82a6e6db57b">&#9670;&#160;</a></span>getSpeciesDestructionTimescales()</h2> <h2 class="memtitle"><span class="permalink"><a href="#a8d34faa3d6ea804a3467979858d33535">&#9670;&#160;</a></span>getSpeciesDestructionTimescales()</h2>
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<td class="memname">std::expected&lt; std::unordered_map&lt; fourdst::atomic::Species, double &gt;, gridfire::expectations::StaleEngineError &gt; PyDynamicEngine::getSpeciesDestructionTimescales </td> <td class="memname">std::expected&lt; std::unordered_map&lt; fourdst::atomic::Species, double &gt;, <a class="el" href="namespacegridfire_1_1engine.html#a4d057e41b489bf20744dfa8d2958ad5a">gridfire::engine::EngineStatus</a> &gt; PyDynamicEngine::getSpeciesDestructionTimescales </td>
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<p>Compute destruction timescales for all species in the network. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
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<dl class="section return"><dt>Returns</dt><dd>Map from Species to their destruction timescales (s).</dd></dl>
<p>This method estimates the destruction timescale for each species, which can be useful for understanding reaction flows and equilibrium states. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#aefc5d0f7842b27a108ba1e4ca346e9a0">gridfire::engine::DynamicEngine</a>.</p>
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<p>Get the index of a species in the network. </p>
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<tr><td class="paramname">species</td><td>The species to look up.</td></tr>
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<p>This method allows querying the index of a specific species in the engine's internal representation. It is useful for accessing species data efficiently. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#ac0f40017603e8e6887b75dc7360d7c5e">gridfire::engine::DynamicEngine</a>.</p>
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<td class="memname">std::expected&lt; std::unordered_map&lt; fourdst::atomic::Species, double &gt;, gridfire::expectations::StaleEngineError &gt; PyDynamicEngine::getSpeciesTimescales </td> <td class="memname"><a class="el" href="namespacegridfire_1_1engine.html#a83c9d755597668bba3cf00cd0ea10ee3">gridfire::engine::SpeciesStatus</a> PyDynamicEngine::getSpeciesStatus </td>
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<p>Get the status of a species in the network. </p>
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<tr><td class="paramname">species</td><td>The species to check. </td></tr>
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<dl class="section return"><dt>Returns</dt><dd>SpeciesStatus indicating whether the species is active, inactive, or culled.</dd></dl>
<p>This method allows querying the current status of a specific species within the engine's network. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a8aebefad50c1aa34207e118e92d7ccf0">gridfire::engine::DynamicEngine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a71678a567bb0cedd8a97aff9ceddd814">&#9670;&#160;</a></span>getSpeciesTimescales()</h2>
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<p>Compute timescales for all species in the network. </p>
<dl class="params"><dt>Parameters</dt><dd>
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<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
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<dl class="section return"><dt>Returns</dt><dd>Map from Species to their characteristic timescales (s).</dd></dl>
<p>This method estimates the timescale for abundance change of each species, which can be used for timestep control, diagnostics, and reaction network culling. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#aef6ed91d922c0b1733fd7835e99d0efe">gridfire::engine::DynamicEngine</a>.</p>
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<p>Get an entry from the stoichiometry matrix. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">species</td><td>species to look up stoichiometry for. </td></tr>
<tr><td class="paramname">reaction</td><td>reaction to find </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>Stoichiometric coefficient for the species in the reaction.</dd></dl>
<p>The stoichiometry matrix must have been generated by <a class="el" href="#a2066649ca11a869c054079ea12d8d0e9" title="Generate the stoichiometry matrix for the network.">generateStoichiometryMatrix()</a>. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a5ce6ff370e3f0964c6b2688fb3f4bb7e">gridfire::engine::DynamicEngine</a>.</p>
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@@ -717,11 +939,28 @@ Private Attributes</h2></td></tr>
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<p>Check if the engine's internal state is stale. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">netIn</td><td>A struct containing the current network input, such as temperature, density, and composition. </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>True if the engine's state is stale and needs to be updated; false otherwise.</dd></dl>
<p>This method allows derived classes to determine if their internal state is out-of-date with respect to the provided network conditions. If the engine is stale, it may require a call to <code><a class="el" href="#af8e6a8cd44f278535d7bcc9a896d6da8" title="Update the internal state of the engine.">update()</a></code> before performing calculations.</p>
<dl class="section user"><dt>Usage Example:</dt><dd><div class="fragment"><div class="line">NetIn input = { ... };</div>
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<div class="line"> <span class="comment">// Update the engine before proceeding</span></div>
<div class="line">}</div>
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<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a79423b9f67b4cac702547b4f1d8bd14c">gridfire::engine::DynamicEngine</a>.</p>
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@@ -742,15 +981,27 @@ Private Attributes</h2></td></tr>
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<p>Map a NetIn object to a vector of molar abundances. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">netIn</td><td>The input conditions for the network. </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>A vector of molar abundances corresponding to the species in the network.</dd></dl>
<p>This method converts the input conditions into a vector of molar abundances, which can be used for further calculations or diagnostics. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#aa9d55b81c1963113aad86aa60c19676f">gridfire::engine::DynamicEngine</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#ac22a10412be6649bf379e6d61113c878">&#9670;&#160;</a></span>primeEngine()</h2> <h2 class="memtitle"><span class="permalink"><a href="#a6118af81e45d2850f7a2517891147274">&#9670;&#160;</a></span>primeEngine()</h2>
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<td class="mlabels-left"> <td class="mlabels-left">
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<td class="memname">gridfire::PrimingReport PyDynamicEngine::primeEngine </td> <td class="memname"><a class="el" href="structgridfire_1_1engine_1_1_priming_report.html">gridfire::engine::PrimingReport</a> PyDynamicEngine::primeEngine </td>
<td>(</td> <td>(</td>
<td class="paramtype">const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;</td> <td class="paramname"><span class="paramname"><em>netIn</em></span></td><td>)</td> <td class="paramtype">const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;</td> <td class="paramname"><span class="paramname"><em>netIn</em></span></td><td>)</td>
<td></td> <td></td>
@@ -767,15 +1018,27 @@ Private Attributes</h2></td></tr>
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<p>Prime the engine with initial conditions. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">netIn</td><td>The input conditions for the network. </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>PrimingReport containing information about the priming process.</dd></dl>
<p>This method is used to prepare the engine for calculations by setting up initial conditions, reactions, and species. It may involve compiling reaction rates, initializing internal data structures, and performing any necessary pre-computation. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a70e270bb50910c0055a75575c1ef1e95">gridfire::engine::DynamicEngine</a>.</p>
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<td class="paramtype">gridfire::BuildDepthType</td> <td class="paramname"><span class="paramname"><em>depth</em></span>&#160;)</td> <td class="paramtype"><a class="el" href="namespacegridfire_1_1engine.html#a55cd7c313bbfafd5b6a1bcd6329ed99b">gridfire::engine::BuildDepthType</a></td> <td class="paramname"><span class="paramname"><em>depth</em></span>&#160;)</td>
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<p>Rebuild the network with a specified depth. </p>
<dl class="params"><dt>Parameters</dt><dd>
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<p>This method is intended to allow dynamic adjustment of the network's depth, which may involve adding or removing species and reactions based on the specified depth. However, not all engines support this operation. </p>
<p>Reimplemented from <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a2444b9ed3bc61920ce23c546444269e4">gridfire::engine::DynamicEngine</a>.</p>
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<p>Set the reactions for the network. </p>
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<p>This method replaces the current set of reactions in the network with the provided set. It marks the engine as stale, requiring regeneration of matrices and recalculation of rates. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#ab321170954bffc53b1bedaf54f6976be">gridfire::engine::DynamicEngine</a>.</p>
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<p>Set the electron screening model. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">model</td><td>The type of screening model to use for reaction rate calculations.</td></tr>
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</dd>
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<p>This method allows changing the screening model at runtime. Screening corrections account for the electrostatic shielding of nuclei by electrons, which affects reaction rates in dense stellar plasmas.</p>
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<dl class="section post"><dt>Postcondition</dt><dd>The engine will use the specified screening model for subsequent rate calculations. </dd></dl>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a50e76977d0dc3cc23d52b51842d35003">gridfire::engine::DynamicEngine</a>.</p>
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<p>Update the internal state of the engine. </p>
<dl class="params"><dt>Parameters</dt><dd>
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<p>This method is intended to be implemented by derived classes to update their internal state based on the provided network conditions. For example, an adaptive engine might use this to re-evaluate which reactions and species are active. For other engines that do not support manually updating, this method might do nothing.</p>
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<dl class="section post"><dt>Postcondition</dt><dd>The internal state of the engine is updated to reflect the new conditions. </dd></dl>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html#a8dd85442ec54f20d91743c72364e36ff">gridfire::engine::DynamicEngine</a>.</p>
</div> </div>
</div> </div>
<h2 class="groupheader">Member Data Documentation</h2> <h2 class="groupheader">Member Data Documentation</h2>

24
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<p>Access the underlying engine instance. </p>
<dl class="section return"><dt>Returns</dt><dd>Const reference to the underlying engine.</dd></dl>
<p>This method must be implemented by derived classes to provide access to the base engine. The returned reference should remain valid for the lifetime of the EngineView.</p>
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<tr class="memitem:a2095abb83ed6229ebb27b4883cec51c4" id="r_a2095abb83ed6229ebb27b4883cec51c4"><td class="memItemLeft" align="right" valign="top"><a class="el" href="structgridfire_1_1_net_out.html">gridfire::NetOut</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2095abb83ed6229ebb27b4883cec51c4">evaluate</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr> <tr class="memitem:a2095abb83ed6229ebb27b4883cec51c4" id="r_a2095abb83ed6229ebb27b4883cec51c4"><td class="memItemLeft" align="right" valign="top"><a class="el" href="structgridfire_1_1_net_out.html">gridfire::NetOut</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2095abb83ed6229ebb27b4883cec51c4">evaluate</a> (const <a class="el" href="structgridfire_1_1_net_in.html">gridfire::NetIn</a> &amp;netIn) override</td></tr>
<tr class="memdesc:a2095abb83ed6229ebb27b4883cec51c4"><td class="mdescLeft">&#160;</td><td class="mdescRight">Evaluates the network for a given timestep. <br /></td></tr> <tr class="memdesc:a2095abb83ed6229ebb27b4883cec51c4"><td class="mdescLeft">&#160;</td><td class="mdescRight">Evaluates the network for a given timestep. <br /></td></tr>
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@@ -156,8 +156,8 @@ Additional Inherited Members</h2></td></tr>
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</table> </table>
<h2 class="groupheader">Constructor &amp; Destructor Documentation</h2> <h2 class="groupheader">Constructor &amp; Destructor Documentation</h2>
<a id="a4a3fce2a9853e7192354834bf2b36159" name="a4a3fce2a9853e7192354834bf2b36159"></a> <a id="a5adc2c51958c6114b4c46264e4d68917" name="a5adc2c51958c6114b4c46264e4d68917"></a>
<h2 class="memtitle"><span class="permalink"><a href="#a4a3fce2a9853e7192354834bf2b36159">&#9670;&#160;</a></span>PyDynamicNetworkSolverStrategy()</h2> <h2 class="memtitle"><span class="permalink"><a href="#a5adc2c51958c6114b4c46264e4d68917">&#9670;&#160;</a></span>PyDynamicNetworkSolverStrategy()</h2>
<div class="memitem"> <div class="memitem">
<div class="memproto"> <div class="memproto">
@@ -168,7 +168,7 @@ Additional Inherited Members</h2></td></tr>
<tr> <tr>
<td class="memname">PyDynamicNetworkSolverStrategy::PyDynamicNetworkSolverStrategy </td> <td class="memname">PyDynamicNetworkSolverStrategy::PyDynamicNetworkSolverStrategy </td>
<td>(</td> <td>(</td>
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<td></td> <td></td>
</tr> </tr>
</table> </table>

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<tbody> <tbody>
<tr id="projectrow"> <tr id="projectrow">
<td id="projectalign"> <td id="projectalign">
<div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0-alpha</span> <div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0_rc1</span>
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<div id="projectbrief">General Purpose Nuclear Network</div> <div id="projectbrief">General Purpose Nuclear Network</div>
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<p>This is the complete list of members for <a class="el" href="class_py_engine.html">PyEngine</a>, including all inherited members.</p> <p>This is the complete list of members for <a class="el" href="class_py_engine.html">PyEngine</a>, including all inherited members.</p>
<table class="directory"> <table class="directory">
<tr class="even"><td class="entry"><a class="el" href="class_py_engine.html#ad707c62fb28025de64d6b3380567fac0">calculateRHSAndEnergy</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_engine.html">PyEngine</a></td><td class="entry"></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_engine.html#abc26a86d4f93b37564d32814edbbac4d">calculateRHSAndEnergy</a>(const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td><td class="entry"><a class="el" href="class_py_engine.html">PyEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_engine.html#a2d240423899e039c2ca688e96f8af1f2">getNetworkSpecies</a>() const override</td><td class="entry"><a class="el" href="class_py_engine.html">PyEngine</a></td><td class="entry"></td></tr> <tr class="odd"><td class="entry"><a class="el" href="class_py_engine.html#a2d240423899e039c2ca688e96f8af1f2">getNetworkSpecies</a>() const override</td><td class="entry"><a class="el" href="class_py_engine.html">PyEngine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_engine.html#a73caaa7606e2cdfd1aa82729a78ebb73">m_species_cache</a></td><td class="entry"><a class="el" href="class_py_engine.html">PyEngine</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">private</span></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_engine.html#a73caaa7606e2cdfd1aa82729a78ebb73">m_species_cache</a></td><td class="entry"><a class="el" href="class_py_engine.html">PyEngine</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">private</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1engine_1_1_engine.html#af0ea99416c28933d364a872fc6aff556">~Engine</a>()=default</td><td class="entry"><a class="el" href="classgridfire_1_1engine_1_1_engine.html">gridfire::engine::Engine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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</div><!-- doc-content --> </div><!-- doc-content -->
<!-- start footer part --> <!-- start footer part -->

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@@ -29,7 +29,7 @@
<tbody> <tbody>
<tr id="projectrow"> <tr id="projectrow">
<td id="projectalign"> <td id="projectalign">
<div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0-alpha</span> <div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0_rc1</span>
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</td> </td>
@@ -111,20 +111,26 @@ $(function(){initNavTree('class_py_engine.html',''); initResizable(true); });
<div class="dynheader"> <div class="dynheader">
Inheritance diagram for PyEngine:</div> Inheritance diagram for PyEngine:</div>
<div class="dyncontent"> <div class="dyncontent">
<div class="center"><iframe scrolling="no" frameborder="0" src="class_py_engine__inherit__graph.svg" width="119" height="111"><p><b>This browser is not able to show SVG: try Firefox, Chrome, Safari, or Opera instead.</b></p></iframe></div> <div class="center"><iframe scrolling="no" frameborder="0" src="class_py_engine__inherit__graph.svg" width="166" height="111"><p><b>This browser is not able to show SVG: try Firefox, Chrome, Safari, or Opera instead.</b></p></iframe></div>
<center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div> <center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div>
<div class="dynheader"> <div class="dynheader">
Collaboration diagram for PyEngine:</div> Collaboration diagram for PyEngine:</div>
<div class="dyncontent"> <div class="dyncontent">
<div class="center"><iframe scrolling="no" frameborder="0" src="class_py_engine__coll__graph.svg" width="286" height="140"><p><b>This browser is not able to show SVG: try Firefox, Chrome, Safari, or Opera instead.</b></p></iframe></div> <div class="center"><iframe scrolling="no" frameborder="0" src="class_py_engine__coll__graph.svg" width="327" height="140"><p><b>This browser is not able to show SVG: try Firefox, Chrome, Safari, or Opera instead.</b></p></iframe></div>
<center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div> <center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div>
<table class="memberdecls"> <table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pub-methods" name="pub-methods"></a> <tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pub-methods" name="pub-methods"></a>
Public Member Functions</h2></td></tr> Public Member Functions</h2></td></tr>
<tr class="memitem:a2d240423899e039c2ca688e96f8af1f2" id="r_a2d240423899e039c2ca688e96f8af1f2"><td class="memItemLeft" align="right" valign="top">const std::vector&lt; fourdst::atomic::Species &gt; &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2d240423899e039c2ca688e96f8af1f2">getNetworkSpecies</a> () const override</td></tr> <tr class="memitem:a2d240423899e039c2ca688e96f8af1f2" id="r_a2d240423899e039c2ca688e96f8af1f2"><td class="memItemLeft" align="right" valign="top">const std::vector&lt; fourdst::atomic::Species &gt; &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2d240423899e039c2ca688e96f8af1f2">getNetworkSpecies</a> () const override</td></tr>
<tr class="memdesc:a2d240423899e039c2ca688e96f8af1f2"><td class="mdescLeft">&#160;</td><td class="mdescRight">Get the list of species in the network. <br /></td></tr>
<tr class="separator:a2d240423899e039c2ca688e96f8af1f2"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="separator:a2d240423899e039c2ca688e96f8af1f2"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:ad707c62fb28025de64d6b3380567fac0" id="r_ad707c62fb28025de64d6b3380567fac0"><td class="memItemLeft" align="right" valign="top">std::expected&lt; gridfire::StepDerivatives&lt; double &gt;, gridfire::expectations::StaleEngineError &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#ad707c62fb28025de64d6b3380567fac0">calculateRHSAndEnergy</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr> <tr class="memitem:abc26a86d4f93b37564d32814edbbac4d" id="r_abc26a86d4f93b37564d32814edbbac4d"><td class="memItemLeft" align="right" valign="top">std::expected&lt; <a class="el" href="structgridfire_1_1engine_1_1_step_derivatives.html">gridfire::engine::StepDerivatives</a>&lt; double &gt;, <a class="el" href="namespacegridfire_1_1engine.html#a4d057e41b489bf20744dfa8d2958ad5a">gridfire::engine::EngineStatus</a> &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#abc26a86d4f93b37564d32814edbbac4d">calculateRHSAndEnergy</a> (const fourdst::composition::CompositionAbstract &amp;comp, double T9, double rho) const override</td></tr>
<tr class="separator:ad707c62fb28025de64d6b3380567fac0"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memdesc:abc26a86d4f93b37564d32814edbbac4d"><td class="mdescLeft">&#160;</td><td class="mdescRight">Calculate the right-hand side (dY/dt) and energy generation. <br /></td></tr>
<tr class="separator:abc26a86d4f93b37564d32814edbbac4d"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="inherit_header pub_methods_classgridfire_1_1engine_1_1_engine"><td colspan="2" onclick="javascript:dynsection.toggleInherit('pub_methods_classgridfire_1_1engine_1_1_engine')"><img src="closed.png" alt="-"/>&#160;Public Member Functions inherited from <a class="el" href="classgridfire_1_1engine_1_1_engine.html">gridfire::engine::Engine</a></td></tr>
<tr class="memitem:af0ea99416c28933d364a872fc6aff556 inherit pub_methods_classgridfire_1_1engine_1_1_engine" id="r_af0ea99416c28933d364a872fc6aff556"><td class="memItemLeft" align="right" valign="top">virtual&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1engine_1_1_engine.html#af0ea99416c28933d364a872fc6aff556">~Engine</a> ()=default</td></tr>
<tr class="memdesc:af0ea99416c28933d364a872fc6aff556 inherit pub_methods_classgridfire_1_1engine_1_1_engine"><td class="mdescLeft">&#160;</td><td class="mdescRight">Virtual destructor. <br /></td></tr>
<tr class="separator:af0ea99416c28933d364a872fc6aff556 inherit pub_methods_classgridfire_1_1engine_1_1_engine"><td class="memSeparator" colspan="2">&#160;</td></tr>
</table><table class="memberdecls"> </table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pri-attribs" name="pri-attribs"></a> <tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pri-attribs" name="pri-attribs"></a>
Private Attributes</h2></td></tr> Private Attributes</h2></td></tr>
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</table> </table>
<h2 class="groupheader">Member Function Documentation</h2> <h2 class="groupheader">Member Function Documentation</h2>
<a id="ad707c62fb28025de64d6b3380567fac0" name="ad707c62fb28025de64d6b3380567fac0"></a> <a id="abc26a86d4f93b37564d32814edbbac4d" name="abc26a86d4f93b37564d32814edbbac4d"></a>
<h2 class="memtitle"><span class="permalink"><a href="#ad707c62fb28025de64d6b3380567fac0">&#9670;&#160;</a></span>calculateRHSAndEnergy()</h2> <h2 class="memtitle"><span class="permalink"><a href="#abc26a86d4f93b37564d32814edbbac4d">&#9670;&#160;</a></span>calculateRHSAndEnergy()</h2>
<div class="memitem"> <div class="memitem">
<div class="memproto"> <div class="memproto">
@@ -142,7 +148,7 @@ Private Attributes</h2></td></tr>
<td class="mlabels-left"> <td class="mlabels-left">
<table class="memname"> <table class="memname">
<tr> <tr>
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<td>(</td> <td>(</td>
<td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td> <td class="paramtype">const fourdst::composition::CompositionAbstract &amp;</td> <td class="paramname"><span class="paramname"><em>comp</em></span>, </td>
</tr> </tr>
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</table> </table>
</td> </td>
<td class="mlabels-right"> <td class="mlabels-right">
<span class="mlabels"><span class="mlabel override">override</span></span> </td> <span class="mlabels"><span class="mlabel override">override</span><span class="mlabel virtual">virtual</span></span> </td>
</tr> </tr>
</table> </table>
</div><div class="memdoc"> </div><div class="memdoc">
<p>Calculate the right-hand side (dY/dt) and energy generation. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">comp</td><td>Composition object containing current abundances. </td></tr>
<tr><td class="paramname">T9</td><td>Temperature in units of 10^9 K. </td></tr>
<tr><td class="paramname">rho</td><td>Density in g/cm^3. </td></tr>
</table>
</dd>
</dl>
<dl class="section return"><dt>Returns</dt><dd>expected&lt;StepDerivatives&lt;double&gt;&gt; containing either dY/dt and energy generation rate or a stale engine error indicating that the engine must be updated</dd></dl>
<p>This function must be implemented by derived classes to compute the time derivatives of all species and the specific nuclear energy generation rate for the current state. </p>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_engine.html#a764fc091c72c12c8529105d7c96badb2">gridfire::engine::Engine</a>.</p>
</div> </div>
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<a id="a2d240423899e039c2ca688e96f8af1f2" name="a2d240423899e039c2ca688e96f8af1f2"></a> <a id="a2d240423899e039c2ca688e96f8af1f2" name="a2d240423899e039c2ca688e96f8af1f2"></a>
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</table> </table>
</td> </td>
<td class="mlabels-right"> <td class="mlabels-right">
<span class="mlabels"><span class="mlabel override">override</span></span> </td> <span class="mlabels"><span class="mlabel override">override</span><span class="mlabel virtual">virtual</span></span> </td>
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</div><div class="memdoc"> </div><div class="memdoc">
<p>Get the list of species in the network. </p>
<dl class="section return"><dt>Returns</dt><dd>Vector of Species objects representing all network species. </dd></dl>
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_engine.html#a3263c3fde2509d5d8ec4da3b6e946c48">gridfire::engine::Engine</a>.</p>
</div> </div>
</div> </div>
<h2 class="groupheader">Member Data Documentation</h2> <h2 class="groupheader">Member Data Documentation</h2>

2
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<tr id="projectrow"> <tr id="projectrow">
<td id="projectalign"> <td id="projectalign">
<div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0-alpha</span> <div id="projectname">GridFire<span id="projectnumber">&#160;v0.7.0_rc1</span>
</div> </div>
<div id="projectbrief">General Purpose Nuclear Network</div> <div id="projectbrief">General Purpose Nuclear Network</div>
</td> </td>
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<p>This is the complete list of members for <a class="el" href="class_py_engine_view.html">PyEngineView</a>, including all inherited members.</p> <p>This is the complete list of members for <a class="el" href="class_py_engine_view.html">PyEngineView</a>, including all inherited members.</p>
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<tr class="even"><td class="entry"><a class="el" href="class_py_engine_view.html#a3cd83dc57b521c65a14edf70357a8845">getBaseEngine</a>() const override</td><td class="entry"><a class="el" href="class_py_engine_view.html">PyEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr> <tr class="even"><td class="entry"><a class="el" href="class_py_engine_view.html#aea9da2bcfdf25f3d17d007091eece206">getBaseEngine</a>() const override</td><td class="entry"><a class="el" href="class_py_engine_view.html">PyEngineView</a></td><td class="entry"><span class="mlabel">private</span><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1engine_1_1_engine_view.html#a17d63e853d6efca31064e9147c80d497">~EngineView</a>()=default</td><td class="entry"><a class="el" href="classgridfire_1_1engine_1_1_engine_view.html">gridfire::engine::EngineView&lt; gridfire::engine::Engine &gt;</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
</table></div><!-- contents --> </table></div><!-- contents -->
</div><!-- doc-content --> </div><!-- doc-content -->
<!-- start footer part --> <!-- start footer part -->

33
docs/html/class_py_engine_view.html
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@@ -29,7 +29,7 @@
<tbody> <tbody>
<tr id="projectrow"> <tr id="projectrow">
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</div> </div>
<div id="projectbrief">General Purpose Nuclear Network</div> <div id="projectbrief">General Purpose Nuclear Network</div>
</td> </td>
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<div class="dynheader"> <div class="dynheader">
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<div class="dyncontent"> <div class="dyncontent">
<div class="center"><iframe scrolling="no" frameborder="0" src="class_py_engine_view__inherit__graph.svg" width="148" height="126"><p><b>This browser is not able to show SVG: try Firefox, Chrome, Safari, or Opera instead.</b></p></iframe></div> <div class="center"><iframe scrolling="no" frameborder="0" src="class_py_engine_view__inherit__graph.svg" width="166" height="140"><p><b>This browser is not able to show SVG: try Firefox, Chrome, Safari, or Opera instead.</b></p></iframe></div>
<center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div> <center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div>
<div class="dynheader"> <div class="dynheader">
Collaboration diagram for PyEngineView:</div> Collaboration diagram for PyEngineView:</div>
<div class="dyncontent"> <div class="dyncontent">
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<center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div> <center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div>
<table class="memberdecls"> <table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pri-methods" name="pri-methods"></a> <tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pri-methods" name="pri-methods"></a>
Private Member Functions</h2></td></tr> Private Member Functions</h2></td></tr>
<tr class="memitem:a3cd83dc57b521c65a14edf70357a8845" id="r_a3cd83dc57b521c65a14edf70357a8845"><td class="memItemLeft" align="right" valign="top">const gridfire::Engine &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a3cd83dc57b521c65a14edf70357a8845">getBaseEngine</a> () const override</td></tr> <tr class="memitem:aea9da2bcfdf25f3d17d007091eece206" id="r_aea9da2bcfdf25f3d17d007091eece206"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classgridfire_1_1engine_1_1_engine.html">gridfire::engine::Engine</a> &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#aea9da2bcfdf25f3d17d007091eece206">getBaseEngine</a> () const override</td></tr>
<tr class="separator:a3cd83dc57b521c65a14edf70357a8845"><td class="memSeparator" colspan="2">&#160;</td></tr> <tr class="memdesc:aea9da2bcfdf25f3d17d007091eece206"><td class="mdescLeft">&#160;</td><td class="mdescRight">Access the underlying engine instance. <br /></td></tr>
<tr class="separator:aea9da2bcfdf25f3d17d007091eece206"><td class="memSeparator" colspan="2">&#160;</td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="inherited" name="inherited"></a>
Additional Inherited Members</h2></td></tr>
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<tr class="memitem:a17d63e853d6efca31064e9147c80d497 inherit pub_methods_classgridfire_1_1engine_1_1_engine_view" id="r_a17d63e853d6efca31064e9147c80d497"><td class="memItemLeft" align="right" valign="top">virtual&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1engine_1_1_engine_view.html#a17d63e853d6efca31064e9147c80d497">~EngineView</a> ()=default</td></tr>
<tr class="memdesc:a17d63e853d6efca31064e9147c80d497 inherit pub_methods_classgridfire_1_1engine_1_1_engine_view"><td class="mdescLeft">&#160;</td><td class="mdescRight">Virtual destructor. <br /></td></tr>
<tr class="separator:a17d63e853d6efca31064e9147c80d497 inherit pub_methods_classgridfire_1_1engine_1_1_engine_view"><td class="memSeparator" colspan="2">&#160;</td></tr>
</table> </table>
<h2 class="groupheader">Member Function Documentation</h2> <h2 class="groupheader">Member Function Documentation</h2>
<a id="a3cd83dc57b521c65a14edf70357a8845" name="a3cd83dc57b521c65a14edf70357a8845"></a> <a id="aea9da2bcfdf25f3d17d007091eece206" name="aea9da2bcfdf25f3d17d007091eece206"></a>
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<tr> <tr>
<td class="memname">const gridfire::Engine &amp; PyEngineView::getBaseEngine </td> <td class="memname">const <a class="el" href="classgridfire_1_1engine_1_1_engine.html">gridfire::engine::Engine</a> &amp; PyEngineView::getBaseEngine </td>
<td>(</td> <td>(</td>
<td class="paramname"><span class="paramname"><em></em></span></td><td>)</td> <td class="paramname"><span class="paramname"><em></em></span></td><td>)</td>
<td> const</td> <td> const</td>
@@ -142,11 +150,18 @@ Private Member Functions</h2></td></tr>
</table> </table>
</td> </td>
<td class="mlabels-right"> <td class="mlabels-right">
<span class="mlabels"><span class="mlabel nodiscard">nodiscard</span><span class="mlabel override">override</span><span class="mlabel private">private</span></span> </td> <span class="mlabels"><span class="mlabel nodiscard">nodiscard</span><span class="mlabel override">override</span><span class="mlabel private">private</span><span class="mlabel virtual">virtual</span></span> </td>
</tr> </tr>
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</div><div class="memdoc"> </div><div class="memdoc">
<p>Access the underlying engine instance. </p>
<dl class="section return"><dt>Returns</dt><dd>Const reference to the underlying engine.</dd></dl>
<p>This method must be implemented by derived classes to provide access to the base engine. The returned reference should remain valid for the lifetime of the EngineView.</p>
<p>Example: </p><div class="fragment"><div class="line"><span class="keyword">const</span> DynamicEngine&amp; engine = myView.getBaseEngine();</div>
</div><!-- fragment -->
<p>Implements <a class="el" href="classgridfire_1_1engine_1_1_engine_view.html#a7884ea8e5618e295e64150f3ecf2c6b5">gridfire::engine::EngineView&lt; gridfire::engine::Engine &gt;</a>.</p>
</div> </div>
</div> </div>
<hr/>The documentation for this class was generated from the following files:<ul> <hr/>The documentation for this class was generated from the following files:<ul>

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@@ -1,4 +1,4 @@
var class_py_engine_view = var class_py_engine_view =
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<a href="#pub-methods">Public Member Functions</a> &#124;
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<tr class="memdesc:ac2c1ef3897e6491d5ab03e7342075245"><td class="mdescLeft">&#160;</td><td class="mdescRight">Human-readable name for the policy. <br /></td></tr>
<tr class="separator:ac2c1ef3897e6491d5ab03e7342075245"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a1d685fd5eb346871af5b8ed677dfcf36" id="r_a1d685fd5eb346871af5b8ed677dfcf36"><td class="memItemLeft" align="right" valign="top">const std::set&lt; fourdst::atomic::Species &gt; &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a1d685fd5eb346871af5b8ed677dfcf36">get_seed_species</a> () const override</td></tr>
<tr class="memdesc:a1d685fd5eb346871af5b8ed677dfcf36"><td class="mdescLeft">&#160;</td><td class="mdescRight">Returns the seed species the policy requires to initialize the network. <br /></td></tr>
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<tr class="memitem:af0b892e995f58375144bd5559cf2b4c9" id="r_af0b892e995f58375144bd5559cf2b4c9"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#af0b892e995f58375144bd5559cf2b4c9">get_seed_reactions</a> () const override</td></tr>
<tr class="memdesc:af0b892e995f58375144bd5559cf2b4c9"><td class="mdescLeft">&#160;</td><td class="mdescRight">Returns the set of seed reactions the policy requires. <br /></td></tr>
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<tr class="memitem:a6871d8aae79db9b784d40b05225b3445" id="r_a6871d8aae79db9b784d40b05225b3445"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html">gridfire::engine::DynamicEngine</a> &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a6871d8aae79db9b784d40b05225b3445">construct</a> () override</td></tr>
<tr class="memdesc:a6871d8aae79db9b784d40b05225b3445"><td class="mdescLeft">&#160;</td><td class="mdescRight">Construct and return a DynamicEngine instance (or engine view stack) satisfying the policy. <br /></td></tr>
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<tr class="memitem:a8506a1f9c22d47c266abe1519ffb9bc0" id="r_a8506a1f9c22d47c266abe1519ffb9bc0"><td class="memItemLeft" align="right" valign="top"><a class="el" href="namespacegridfire_1_1policy.html#a0f52cd334fb84998d9c68430a41f6109">gridfire::policy::NetworkPolicyStatus</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8506a1f9c22d47c266abe1519ffb9bc0">get_status</a> () const override</td></tr>
<tr class="memdesc:a8506a1f9c22d47c266abe1519ffb9bc0"><td class="mdescLeft">&#160;</td><td class="mdescRight">Returns the current verification/construction status of the policy. <br /></td></tr>
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<tr class="memitem:ac640b306cf921c0793a296bd41e8d405" id="r_ac640b306cf921c0793a296bd41e8d405"><td class="memItemLeft" align="right" valign="top">const std::vector&lt; std::unique_ptr&lt; <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html">gridfire::engine::DynamicEngine</a> &gt; &gt; &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#ac640b306cf921c0793a296bd41e8d405">get_engine_stack</a> () const override</td></tr>
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<tr class="memitem:a62eed803e30afebbbc074a3bf334524b" id="r_a62eed803e30afebbbc074a3bf334524b"><td class="memItemLeft" align="right" valign="top">std::vector&lt; <a class="el" href="namespacegridfire_1_1engine.html#a5387db1ec0b039955487fbc4c0034854">gridfire::engine::EngineTypes</a> &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a62eed803e30afebbbc074a3bf334524b">get_engine_types_stack</a> () const override</td></tr>
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<tr class="memitem:a86d85c133b7dba16f93e3a084201b931" id="r_a86d85c133b7dba16f93e3a084201b931"><td class="memItemLeft" align="right" valign="top">const std::unique_ptr&lt; <a class="el" href="classgridfire_1_1partition_1_1_partition_function.html">gridfire::partition::PartitionFunction</a> &gt; &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a86d85c133b7dba16f93e3a084201b931">get_partition_function</a> () const override</td></tr>
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<tr class="inherit_header pub_methods_classgridfire_1_1policy_1_1_network_policy"><td colspan="2" onclick="javascript:dynsection.toggleInherit('pub_methods_classgridfire_1_1policy_1_1_network_policy')"><img src="closed.png" alt="-"/>&#160;Public Member Functions inherited from <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html">gridfire::policy::NetworkPolicy</a></td></tr>
<tr class="memitem:a0d32c22a2d3794c328e8dd24d2cda2be inherit pub_methods_classgridfire_1_1policy_1_1_network_policy" id="r_a0d32c22a2d3794c328e8dd24d2cda2be"><td class="memItemLeft" align="right" valign="top">virtual&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#a0d32c22a2d3794c328e8dd24d2cda2be">~NetworkPolicy</a> ()=default</td></tr>
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<h2 class="groupheader">Member Function Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#a6871d8aae79db9b784d40b05225b3445">&#9670;&#160;</a></span>construct()</h2>
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<td class="memname"><a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html">gridfire::engine::DynamicEngine</a> &amp; PyNetworkPolicy::construct </td>
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<p>Construct and return a DynamicEngine instance (or engine view stack) satisfying the policy. </p>
<p>Implementations typically build one or more engine layers (GraphEngine, MultiscalePartitioningEngineView, AdaptiveEngineView, etc.) and return a reference to the top-most DynamicEngine. The storage lifetime of the returned reference is implementation-defined (usually owned by the policy instance).</p>
<dl class="section return"><dt>Returns</dt><dd>DynamicEngine&amp; reference to a running/constructed engine ready for solver consumption.</dd></dl>
<dl class="exception"><dt>Exceptions</dt><dd>
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<tr><td class="paramname"><a class="el" href="classgridfire_1_1exceptions_1_1_missing_key_reaction_error.html" title="Exception thrown when a constructed network fails to include a key reaction required by the policy.">gridfire::exceptions::MissingKeyReactionError</a></td><td>if required reactions are not present in the constructed network (see <code><a class="el" href="error__policy_8h.html" title="Defines custom exception types related to network policy construction and verification.">gridfire/exceptions/error_policy.h</a></code>). </td></tr>
<tr><td class="paramname"><a class="el" href="classgridfire_1_1exceptions_1_1_missing_seed_species_error.html" title="Exception thrown when a required seed species is not found in the initial composition.">gridfire::exceptions::MissingSeedSpeciesError</a></td><td>if required seed species are missing from the initializing composition. </td></tr>
<tr><td class="paramname"><a class="el" href="classgridfire_1_1exceptions_1_1_policy_error.html" title="Base class for all exceptions related to network policy operations.">gridfire::exceptions::PolicyError</a></td><td>for other construction/verification failures.</td></tr>
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<dl class="section user"><dt>Example</dt><dd><div class="fragment"><div class="line">DynamicEngine &amp;engine = policy.construct();</div>
<div class="line">solver::CVODESolverStrategy solver(engine);</div>
<div class="line">NetOut out = solver.evaluate(netIn, <span class="keyword">true</span>);</div>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#a13cd74c967592392b01d8fe9a5b34d88">gridfire::policy::NetworkPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#ac640b306cf921c0793a296bd41e8d405">&#9670;&#160;</a></span>get_engine_stack()</h2>
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<td class="memname">const std::vector&lt; std::unique_ptr&lt; <a class="el" href="classgridfire_1_1engine_1_1_dynamic_engine.html">gridfire::engine::DynamicEngine</a> &gt; &gt; &amp; PyNetworkPolicy::get_engine_stack </td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#a92891fe37b8684fe9f1c5958674de2d5">gridfire::policy::NetworkPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a62eed803e30afebbbc074a3bf334524b">&#9670;&#160;</a></span>get_engine_types_stack()</h2>
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<td class="memname">std::vector&lt; <a class="el" href="namespacegridfire_1_1engine.html#a5387db1ec0b039955487fbc4c0034854">gridfire::engine::EngineTypes</a> &gt; PyNetworkPolicy::get_engine_types_stack </td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#aac63625678d287d0ca36c98f51e86dd2">gridfire::policy::NetworkPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a86d85c133b7dba16f93e3a084201b931">&#9670;&#160;</a></span>get_partition_function()</h2>
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<td class="memname">const std::unique_ptr&lt; <a class="el" href="classgridfire_1_1partition_1_1_partition_function.html">gridfire::partition::PartitionFunction</a> &gt; &amp; PyNetworkPolicy::get_partition_function </td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#a1c395eb83b0bcf728db230e7772aabcf">gridfire::policy::NetworkPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#af0b892e995f58375144bd5559cf2b4c9">&#9670;&#160;</a></span>get_seed_reactions()</h2>
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<td class="memname">const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp; PyNetworkPolicy::get_seed_reactions </td>
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<p>Returns the set of seed reactions the policy requires. </p>
<p>The ReactionSet describes reactions that must be present in the constructed network for the policy to be considered satisfied. Concrete policies often implement their reaction requirements by composing one or more ReactionChainPolicy instances (see <code><a class="el" href="chains_8h.html" title="Concrete implementations of ReactionChainPolicy for key stellar reaction chains.">chains.h</a></code>).</p>
<dl class="section user"><dt>Example</dt><dd><div class="fragment"><div class="line"><span class="keyword">const</span> reaction::ReactionSet &amp;reactions = policy.get_seed_reactions();</div>
<div class="line"><span class="comment">// inspect reaction IDs or count</span></div>
<div class="line">std::cout &lt;&lt; <span class="stringliteral">&quot;Policy requires &quot;</span> &lt;&lt; reactions.size() &lt;&lt; <span class="stringliteral">&quot; reactions&quot;</span> &lt;&lt; std::endl;</div>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#aa33fcee020f5acd8e14aadaf3758ad2f">gridfire::policy::NetworkPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a1d685fd5eb346871af5b8ed677dfcf36">&#9670;&#160;</a></span>get_seed_species()</h2>
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<p>Returns the seed species the policy requires to initialize the network. </p>
<p>The returned set contains atomic species identifiers (fourdst::atomic::Species) which the policy expects to be present in the initial composition used to build the network.</p>
<p>Implementations should return a copy or an immutable reference to their internal set of required seed species.</p>
<dl class="section user"><dt>Example</dt><dd><div class="fragment"><div class="line"><span class="keyword">const</span> <span class="keyword">auto</span> seeds = policy.get_seed_species();</div>
<div class="line"><span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;s : seeds) { std::cout &lt;&lt; s.name() &lt;&lt; std::endl; }</div>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#afb599d76b423f7a39b322c967302b49b">gridfire::policy::NetworkPolicy</a>.</p>
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<td class="memname"><a class="el" href="namespacegridfire_1_1policy.html#a0f52cd334fb84998d9c68430a41f6109">gridfire::policy::NetworkPolicyStatus</a> PyNetworkPolicy::get_status </td>
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<p>Returns the current verification/construction status of the policy. </p>
<p>The status reports whether the policy has been initialized and whether the constructed network satisfies the policy's key requirements.</p>
<dl class="section user"><dt>Example</dt><dd><div class="fragment"><div class="line">NetworkPolicyStatus s = policy.getStatus();</div>
<div class="line"><span class="keywordflow">if</span> (s != NetworkPolicyStatus::INITIALIZED_VERIFIED) { <span class="comment">// handle error }</span></div>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#a3d0f2aee8ead71da4d421fb659fb30f7">gridfire::policy::NetworkPolicy</a>.</p>
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<p>Human-readable name for the policy. </p>
<dl class="section return"><dt>Returns</dt><dd>a std::string identifying the policy implementation (e.g. "MainSequencePolicy").</dd></dl>
<dl class="section user"><dt>Example</dt><dd><div class="fragment"><div class="line">std::string n = policy.name();</div>
<div class="line">std::cout &lt;&lt; <span class="stringliteral">&quot;Using policy: &quot;</span> &lt;&lt; n &lt;&lt; std::endl;</div>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_network_policy.html#aa59c1baf7077a5d35d45ff753b32a565">gridfire::policy::NetworkPolicy</a>.</p>
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<hr/>The documentation for this class was generated from the following files:<ul>
<li>src/python/policy/trampoline/<a class="el" href="py__policy_8h.html">py_policy.h</a></li>
<li>src/python/policy/trampoline/<a class="el" href="py__policy_8cpp.html">py_policy.cpp</a></li>
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<tr class="even"><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html#a0b44991bd6a5edebb861e78a26f783cd">clone</a>() const override</td><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html">PyReactionChainPolicy</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html#ab30925d8253ecdabb73ea2b116e9c7da">contains</a>(const gridfire::reaction::Reaction &amp;reaction) const override</td><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html">PyReactionChainPolicy</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html#a5fd4ff9137e1d76decf7318066d45969">get_reactions</a>() const override</td><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html">PyReactionChainPolicy</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html#a42d2f71522e7f13624c2598597f14809">hash</a>(uint64_t seed) const override</td><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html">PyReactionChainPolicy</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html#af148bf87fea9ebe61de745913a2fd504">name</a>() const override</td><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html">PyReactionChainPolicy</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
<tr class="even"><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html#a8e3c5cdd4c1901bedf93168868a759a9">operator!=</a>(const ReactionChainPolicy &amp;other) const override</td><td class="entry"><a class="el" href="class_py_reaction_chain_policy.html">PyReactionChainPolicy</a></td><td class="entry"></td></tr>
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#ac19e354a8bcd28f60783b70d8a761030">gridfire::policy::ReactionChainPolicy::operator!=</a>(const ReactionChainPolicy &amp;other) const =0</td><td class="entry"><a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html">gridfire::policy::ReactionChainPolicy</a></td><td class="entry"><span class="mlabel">pure virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#a30420a3881779c822ab06c0405ea7b28">gridfire::policy::ReactionChainPolicy::operator==</a>(const ReactionChainPolicy &amp;other) const =0</td><td class="entry"><a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html">gridfire::policy::ReactionChainPolicy</a></td><td class="entry"><span class="mlabel">pure virtual</span></td></tr>
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<a href="#pub-methods">Public Member Functions</a> &#124;
<a href="class_py_reaction_chain_policy-members.html">List of all members</a> </div>
<div class="headertitle"><div class="title">PyReactionChainPolicy Class Reference<span class="mlabels"><span class="mlabel final">final</span></span></div></div>
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<p><code>#include &lt;py_policy.h&gt;</code></p>
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Inheritance diagram for PyReactionChainPolicy:</div>
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Collaboration diagram for PyReactionChainPolicy:</div>
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<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pub-methods" name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr class="memitem:a5fd4ff9137e1d76decf7318066d45969" id="r_a5fd4ff9137e1d76decf7318066d45969"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a5fd4ff9137e1d76decf7318066d45969">get_reactions</a> () const override</td></tr>
<tr class="memdesc:a5fd4ff9137e1d76decf7318066d45969"><td class="mdescLeft">&#160;</td><td class="mdescRight">Returns the ReactionSet describing this chain. <br /></td></tr>
<tr class="separator:a5fd4ff9137e1d76decf7318066d45969"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a16f289efd1d92eead3a3ca6fcfceba4d" id="r_a16f289efd1d92eead3a3ca6fcfceba4d"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a16f289efd1d92eead3a3ca6fcfceba4d">contains</a> (const std::string &amp;id) const override</td></tr>
<tr class="separator:a16f289efd1d92eead3a3ca6fcfceba4d"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:ab30925d8253ecdabb73ea2b116e9c7da" id="r_ab30925d8253ecdabb73ea2b116e9c7da"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#ab30925d8253ecdabb73ea2b116e9c7da">contains</a> (const <a class="el" href="classgridfire_1_1reaction_1_1_reaction.html">gridfire::reaction::Reaction</a> &amp;reaction) const override</td></tr>
<tr class="separator:ab30925d8253ecdabb73ea2b116e9c7da"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a0b44991bd6a5edebb861e78a26f783cd" id="r_a0b44991bd6a5edebb861e78a26f783cd"><td class="memItemLeft" align="right" valign="top">std::unique_ptr&lt; ReactionChainPolicy &gt;&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a0b44991bd6a5edebb861e78a26f783cd">clone</a> () const override</td></tr>
<tr class="separator:a0b44991bd6a5edebb861e78a26f783cd"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:af148bf87fea9ebe61de745913a2fd504" id="r_af148bf87fea9ebe61de745913a2fd504"><td class="memItemLeft" align="right" valign="top">std::string&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#af148bf87fea9ebe61de745913a2fd504">name</a> () const override</td></tr>
<tr class="separator:af148bf87fea9ebe61de745913a2fd504"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a42d2f71522e7f13624c2598597f14809" id="r_a42d2f71522e7f13624c2598597f14809"><td class="memItemLeft" align="right" valign="top">uint64_t&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a42d2f71522e7f13624c2598597f14809">hash</a> (uint64_t seed) const override</td></tr>
<tr class="separator:a42d2f71522e7f13624c2598597f14809"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:ad6671a30c99ad7a80edd60bd43a8a233" id="r_ad6671a30c99ad7a80edd60bd43a8a233"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#ad6671a30c99ad7a80edd60bd43a8a233">operator==</a> (const ReactionChainPolicy &amp;other) const override</td></tr>
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<tr class="memitem:a8e3c5cdd4c1901bedf93168868a759a9" id="r_a8e3c5cdd4c1901bedf93168868a759a9"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8e3c5cdd4c1901bedf93168868a759a9">operator!=</a> (const ReactionChainPolicy &amp;other) const override</td></tr>
<tr class="separator:a8e3c5cdd4c1901bedf93168868a759a9"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="inherit_header pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy"><td colspan="2" onclick="javascript:dynsection.toggleInherit('pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy')"><img src="closed.png" alt="-"/>&#160;Public Member Functions inherited from <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html">gridfire::policy::ReactionChainPolicy</a></td></tr>
<tr class="memitem:aa3e6c1e4844fe788aeb08d272070ae13 inherit pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy" id="r_aa3e6c1e4844fe788aeb08d272070ae13"><td class="memItemLeft" align="right" valign="top">virtual&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#aa3e6c1e4844fe788aeb08d272070ae13">~ReactionChainPolicy</a> ()=default</td></tr>
<tr class="separator:aa3e6c1e4844fe788aeb08d272070ae13 inherit pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a30420a3881779c822ab06c0405ea7b28 inherit pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy" id="r_a30420a3881779c822ab06c0405ea7b28"><td class="memItemLeft" align="right" valign="top">virtual bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#a30420a3881779c822ab06c0405ea7b28">operator==</a> (const <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html">ReactionChainPolicy</a> &amp;other) const =0</td></tr>
<tr class="separator:a30420a3881779c822ab06c0405ea7b28 inherit pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:ac19e354a8bcd28f60783b70d8a761030 inherit pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy" id="r_ac19e354a8bcd28f60783b70d8a761030"><td class="memItemLeft" align="right" valign="top">virtual bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#ac19e354a8bcd28f60783b70d8a761030">operator!=</a> (const <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html">ReactionChainPolicy</a> &amp;other) const =0</td></tr>
<tr class="separator:ac19e354a8bcd28f60783b70d8a761030 inherit pub_methods_classgridfire_1_1policy_1_1_reaction_chain_policy"><td class="memSeparator" colspan="2">&#160;</td></tr>
</table>
<h2 class="groupheader">Member Function Documentation</h2>
<a id="a0b44991bd6a5edebb861e78a26f783cd" name="a0b44991bd6a5edebb861e78a26f783cd"></a>
<h2 class="memtitle"><span class="permalink"><a href="#a0b44991bd6a5edebb861e78a26f783cd">&#9670;&#160;</a></span>clone()</h2>
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<td class="memname">std::unique_ptr&lt; <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html">gridfire::policy::ReactionChainPolicy</a> &gt; PyReactionChainPolicy::clone </td>
<td>(</td>
<td class="paramname"><span class="paramname"><em></em></span></td><td>)</td>
<td> const</td>
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<span class="mlabels"><span class="mlabel nodiscard">nodiscard</span><span class="mlabel override">override</span><span class="mlabel virtual">virtual</span></span> </td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#ac24ff49b7715ad3eefea4bed1bf23686">gridfire::policy::ReactionChainPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#ab30925d8253ecdabb73ea2b116e9c7da">&#9670;&#160;</a></span>contains() <span class="overload">[1/2]</span></h2>
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<td class="memname">bool PyReactionChainPolicy::contains </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classgridfire_1_1reaction_1_1_reaction.html">gridfire::reaction::Reaction</a> &amp;</td> <td class="paramname"><span class="paramname"><em>reaction</em></span></td><td>)</td>
<td> const</td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#a68239737ada169238251f1994680fc7e">gridfire::policy::ReactionChainPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a16f289efd1d92eead3a3ca6fcfceba4d">&#9670;&#160;</a></span>contains() <span class="overload">[2/2]</span></h2>
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<td class="memname">bool PyReactionChainPolicy::contains </td>
<td>(</td>
<td class="paramtype">const std::string &amp;</td> <td class="paramname"><span class="paramname"><em>id</em></span></td><td>)</td>
<td> const</td>
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<span class="mlabels"><span class="mlabel nodiscard">nodiscard</span><span class="mlabel override">override</span><span class="mlabel virtual">virtual</span></span> </td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#a0c9a42646920ac02c8d1e63dfe6f9461">gridfire::policy::ReactionChainPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a5fd4ff9137e1d76decf7318066d45969">&#9670;&#160;</a></span>get_reactions()</h2>
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<td class="memname">const <a class="el" href="classgridfire_1_1reaction_1_1_reaction_set.html">gridfire::reaction::ReactionSet</a> &amp; PyReactionChainPolicy::get_reactions </td>
<td>(</td>
<td class="paramname"><span class="paramname"><em></em></span></td><td>)</td>
<td> const</td>
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<p>Returns the ReactionSet describing this chain. </p>
<dl class="section return"><dt>Returns</dt><dd>const reaction::ReactionSet&amp; reference to the chain's reactions.</dd></dl>
<dl class="section user"><dt>Example</dt><dd><div class="fragment"><div class="line"><span class="keyword">const</span> reaction::ReactionSet &amp;set = chainPolicy.get_reactions();</div>
<div class="line">std::cout &lt;&lt; <span class="stringliteral">&quot;Chain contains &quot;</span> &lt;&lt; set.size() &lt;&lt; <span class="stringliteral">&quot; reactions\n&quot;</span>;</div>
</div><!-- fragment --></dd></dl>
<dl class="exception"><dt>Exceptions</dt><dd>
<table class="exception">
<tr><td class="paramname"><a class="el" href="classgridfire_1_1exceptions_1_1_missing_base_reaction_error.html" title="Exception thrown when a required reaction is missing from the underlying database (e....">gridfire::exceptions::MissingBaseReactionError</a></td><td>may be thrown by concrete implementations at construction time if the required reactions cannot be found in the base reaction set. </td></tr>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#ad8bccf78e7fc99d08387aec5015e8849">gridfire::policy::ReactionChainPolicy</a>.</p>
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<td class="memname">uint64_t PyReactionChainPolicy::hash </td>
<td>(</td>
<td class="paramtype">uint64_t</td> <td class="paramname"><span class="paramname"><em>seed</em></span></td><td>)</td>
<td> const</td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#a5d1b5640d654f49399145f912e77c19b">gridfire::policy::ReactionChainPolicy</a>.</p>
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<td class="memname">std::string PyReactionChainPolicy::name </td>
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<td> const</td>
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<p>Implements <a class="el" href="classgridfire_1_1policy_1_1_reaction_chain_policy.html#a41758d921a2d7e83f446aa4fec00d598">gridfire::policy::ReactionChainPolicy</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a8e3c5cdd4c1901bedf93168868a759a9">&#9670;&#160;</a></span>operator!=()</h2>
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<td class="memname">bool PyReactionChainPolicy::operator!= </td>
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<td class="paramtype">const ReactionChainPolicy &amp;</td> <td class="paramname"><span class="paramname"><em>other</em></span></td><td>)</td>
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<td class="memname">bool PyReactionChainPolicy::operator== </td>
<td>(</td>
<td class="paramtype">const ReactionChainPolicy &amp;</td> <td class="paramname"><span class="paramname"><em>other</em></span></td><td>)</td>
<td> const</td>
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<td class="mlabels-right">
<span class="mlabels"><span class="mlabel nodiscard">nodiscard</span><span class="mlabel override">override</span></span> </td>
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<hr/>The documentation for this class was generated from the following files:<ul>
<li>src/python/policy/trampoline/<a class="el" href="py__policy_8h.html">py_policy.h</a></li>
<li>src/python/policy/trampoline/<a class="el" href="py__policy_8cpp.html">py_policy.cpp</a></li>
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<li class="navelem"><a class="el" href="class_py_reaction_chain_policy.html">PyReactionChainPolicy</a></li>
<li class="footer">Generated by <a href="https://www.doxygen.org/index.html"><img class="footer" src="doxygen.svg" width="104" height="31" alt="doxygen"/></a> 1.13.2 </li>
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var class_py_reaction_chain_policy =
[
[ "clone", "class_py_reaction_chain_policy.html#a0b44991bd6a5edebb861e78a26f783cd", null ],
[ "contains", "class_py_reaction_chain_policy.html#ab30925d8253ecdabb73ea2b116e9c7da", null ],
[ "contains", "class_py_reaction_chain_policy.html#a16f289efd1d92eead3a3ca6fcfceba4d", null ],
[ "get_reactions", "class_py_reaction_chain_policy.html#a5fd4ff9137e1d76decf7318066d45969", null ],
[ "hash", "class_py_reaction_chain_policy.html#a42d2f71522e7f13624c2598597f14809", null ],
[ "name", "class_py_reaction_chain_policy.html#af148bf87fea9ebe61de745913a2fd504", null ],
[ "operator!=", "class_py_reaction_chain_policy.html#a8e3c5cdd4c1901bedf93168868a759a9", null ],
[ "operator==", "class_py_reaction_chain_policy.html#ad6671a30c99ad7a80edd60bd43a8a233", null ]
];

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<map id="PyReactionChainPolicy" name="PyReactionChainPolicy">
<area shape="rect" id="Node000001" title=" " alt="" coords="7,94,166,120"/>
<area shape="rect" id="Node000002" href="$classgridfire_1_1policy_1_1_reaction_chain_policy.html" title="Abstract interface encapsulating a set of reactions representing a single chain or pathway." alt="" coords="5,5,168,46"/>
<area shape="poly" id="edge1_Node000001_Node000002" title=" " alt="" coords="89,62,89,93,84,93,84,62"/>
</map>

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