docs(docs): asdded and cleaned up docs
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@@ -105,43 +105,54 @@ $(function(){initNavTree('classgridfire_1_1_file_defined_engine_view.html','');
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<p>This is the complete list of members for <a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a>, including all inherited members.</p>
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<table class="directory">
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a3b5162b7be35405285ef9f825ec2663b">buildFromFile</a>(const std::string &fileName)</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#ac371fb66fd0a76a04df204c9dd9a05ef">calculateMolarReactionFlow</a>(const reaction::Reaction &reaction, const std::vector< double > &Y_defined, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#a2c1d88b06568f9ea4c65e794d012ebfb">calculateRHSAndEnergy</a>(const std::vector< double > &Y_defined, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_defined_engine_view.html#a142725470f96cba3edb48a29f1264032">calculateMolarReactionFlow</a>(const reaction::Reaction &reaction, const std::vector< double > &Y_defined, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a4b0d71367cb1d4c06bcd01251bbeb60d">calculateRHSAndEnergy</a>(const std::vector< double > &Y_defined, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</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="classgridfire_1_1_defined_engine_view.html#adbc64284b5f5a3256867be46fa87c69e">collect</a>(const std::vector< std::string > &peNames)</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a63f8f85e75ecaab6fa39d48d7a846187">Config</a> typedef</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#aebb3f3548f8781506f31580706810a4e">constructReactionIndexMap</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a51ba09ff01fdcac1125d42f276c9a0a7">constructSpeciesIndexMap</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a8f2f64bab0f516ed2a6fd529912e0acd">FileDefinedEngineView</a>(DynamicEngine &baseEngine, const std::string &fileName, const io::NetworkFileParser &parser)</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">explicit</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a48b2451f96b8f5511ffc4071519c0810">generateJacobianMatrix</a>(const std::vector< double > &Y_defined, const double T9, const double rho) override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#a27a5163157cc15c4cb3b99a5d3564dbd">generateStoichiometryMatrix</a>() override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a4c8b273c5cb3d470567c5691b68493a3">getBaseEngine</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#a0ef8804780d13bbfce0856237bb00470">getJacobianMatrixEntry</a>(const int i_defined, const int j_defined) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a5bbea17b69cc8f81bc251a04f4435a0c">getNetworkReactions</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#a8bb583e039b49608272997ed2d3387fa">getNetworkSpecies</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#adbc50f397445f92b810d80cf329b8626">getScreeningModel</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#ace3c6ea4841318c08695973ab3dcddc6">getSpeciesTimescales</a>(const std::vector< double > &Y_defined, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a9da9224f5c99a5068f3d8cbf066e4693">getStoichiometryMatrixEntry</a>(const int speciesIndex_defined, const int reactionIndex_defined) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_defined_engine_view.html#ab2514984afaaf8590c28ab71943fbe68">constructReactionIndexMap</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a9ea4812bc697fe43f8aded14f8aa0985">constructSpeciesIndexMap</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a9b319b4a1bd5a08381ebb183daf72c92">DefinedEngineView</a>(const std::vector< std::string > &peNames, DynamicEngine &baseEngine)</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a8f2f64bab0f516ed2a6fd529912e0acd">FileDefinedEngineView</a>(DynamicEngine &baseEngine, const std::string &fileName, const io::NetworkFileParser &parser)</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">explicit</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#ad25c722eaee1f28f8ed7b4d33a1f69ae">generateJacobianMatrix</a>(const std::vector< double > &Y_dynamic, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_dynamic_engine.html#a818d942efa843959393e4eed3263b7e7">gridfire::DynamicEngine::generateJacobianMatrix</a>(const std::vector< double > &Y_dynamic, double T9, double rho, const SparsityPattern &sparsityPattern) const</td><td class="entry"><a class="el" href="classgridfire_1_1_dynamic_engine.html">gridfire::DynamicEngine</a></td><td class="entry"><span class="mlabel">inline</span><span class="mlabel">virtual</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#ad07221be49ae1b5133c5b987dafac3b6">generateStoichiometryMatrix</a>() override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a69b9a5812ad8bda13f956acd0da24484">getBaseEngine</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</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="classgridfire_1_1_dynamic_engine.html#a04317b66ef14d519264bc30ee69f5bf9">getDepth</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_dynamic_engine.html">gridfire::DynamicEngine</a></td><td class="entry"><span class="mlabel">inline</span><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a273b175049f5ce7b9208e931ad139e1b">getJacobianMatrixEntry</a>(const int i_defined, const int j_defined) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#ae0c35d8963b6ed05aeb88089ce301718">getNetworkFile</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">inline</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#ae03b4f9afac03d4011a4d7cf0423535d">getNetworkReactions</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</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="classgridfire_1_1_defined_engine_view.html#a1a55f9748c45af6f13e16a6b6ceaa211">getNetworkSpecies</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#aea834dc382ff1d663040db4532ea928f">getParser</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">inline</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a3c657b82a0117118a4bb0ce7f624ae0c">getScreeningModel</a>() const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a3d58e36ed8a6a0d82bb65e91090f7491">getSpeciesDestructionTimescales</a>(const std::vector< double > &Y_defined, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</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="classgridfire_1_1_defined_engine_view.html#abfee22688617ffe91c69be93049c89b3">getSpeciesIndex</a>(const fourdst::atomic::Species &species) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#ac8daafabbc76f4b6811bede241a03d72">getSpeciesTimescales</a>(const std::vector< double > &Y_defined, const double T9, const double rho) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</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="classgridfire_1_1_defined_engine_view.html#afa2820971397114d788730cc33feefe2">getStoichiometryMatrixEntry</a>(const int speciesIndex_defined, const int reactionIndex_defined) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a7d9e738dd28efb4d6127de7379169c87">isStale</a>(const NetIn &netIn) override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#acbb1a9bcb775e6d50de512a333afed08">LogManager</a> typedef</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#ae012da2b1f6169cb13e6075a73353ab2">m_activeReactions</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a299a0c61aa4f26029c770013c9feff5e">m_activeSpecies</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#ad8454c98fa9a4bb45dc81059bc51fc81">m_baseEngine</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a373d4a83f30527a1bfaf1d74ad14c965">m_activeReactions</a></td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a64e9c79a36d529e1b296fe5786e57aae">m_activeSpecies</a></td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a6e3243a8a8bcdce3282a8f82c5f98195">m_baseEngine</a></td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a7a80966c023ae722239491af58609362">m_config</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a1b343998b93955025a589b2b4541e33b">m_fileName</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a6e421bc748933be31bed9ff53f12b595">m_isStale</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a217d541f3fa777b1552f652fbb520382">m_isStale</a></td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a9d93633ed4ab68de94b7274f879a0432">m_logger</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a0a9b07176cb93b54c677b6ce71fda500">m_parser</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#af0a77a4749a15aae87bdecfccbd1736e">m_reactionIndexMap</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#aebd4a1a584f2784f1df3d503645be03b">m_speciesIndexMap</a></td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a97e5ee4651dbe6754678fe96e4702fee">mapFullToView</a>(const std::vector< double > &full) const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#adba3c11b11a04b2907c1635210d73dee">mapViewToFull</a>(const std::vector< double > &defined) const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a74217a1f8fd8e6daff969cb17885315c">mapViewToFullReactionIndex</a>(size_t definedReactionIndex) const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#aa2373955ef5b0eabf7a57c7208e38bb1">mapViewToFullSpeciesIndex</a>(size_t definedSpeciesIndex) const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#a92f14da849e99d07c1ff1347addb9263">setNetworkFile</a>(const std::string &fileName)</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#ad96bbee6d3d37b50d9236a975ef704c0">setScreeningModel</a>(screening::ScreeningType model) override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html#ace3568eadaba69e7357b4386c5ca3eb0">update</a>(const NetIn &netIn) override</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</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="classgridfire_1_1_file_defined_engine_view.html#ae3f99002ab2c56a5bcdec00839f8628f">validateNetworkState</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_file_defined_engine_view.html">gridfire::FileDefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_engine.html#a2e7970bed2100699f226f4141d5db037">~Engine</a>()=default</td><td class="entry"><a class="el" href="classgridfire_1_1_engine.html">gridfire::Engine</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="classgridfire_1_1_engine_view.html#a994660f2d553f3a123512dc5eb421e74">~EngineView</a>()=default</td><td class="entry"><a class="el" href="classgridfire_1_1_engine_view.html">gridfire::EngineView< DynamicEngine ></a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#affda6d60651c53ee02532806104671bd">m_reactionIndexMap</a></td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#acc4976262e208d1dd2185ebccbdd275e">m_speciesIndexMap</a></td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
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<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a2f59af6fb3516911de2a3e3ff0ed8873">mapFullToView</a>(const std::vector< double > &full) const</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
|
||||
<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a72789c1c3379594b65b560da50192de2">mapNetInToMolarAbundanceVector</a>(const NetIn &netIn) const override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
|
||||
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a626ab005bfa08b201518c13627e1f843">mapViewToFull</a>(const std::vector< double > &defined) const</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
|
||||
<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#aadf373d69a22fcd171a6c251466d53d1">mapViewToFullReactionIndex</a>(size_t definedReactionIndex) const</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
|
||||
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#af6fb8c3c7894b505bd81d15f012f154a">mapViewToFullSpeciesIndex</a>(size_t definedSpeciesIndex) const</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
|
||||
<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a13033abd3b44904f98b58c93e22da460">primeEngine</a>(const NetIn &netIn) override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
|
||||
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_dynamic_engine.html#a4e2c8b896661b7a89beffe0066cb21cf">rebuild</a>(const fourdst::composition::Composition &comp, BuildDepthType depth)</td><td class="entry"><a class="el" href="classgridfire_1_1_dynamic_engine.html">gridfire::DynamicEngine</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="classgridfire_1_1_defined_engine_view.html#a9736edfb7c9148b60de30d50c0d3530d">setNetworkReactions</a>(const reaction::LogicalReactionSet &reactions) override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
|
||||
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#abf2da57c83c3c4c635cb301f53088258">setScreeningModel</a>(screening::ScreeningType model) override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
|
||||
<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#ae5762f395caea5381ec177507816b5ae">update</a>(const NetIn &netIn) override</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
|
||||
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html#a56bd041c2fc7fe4f1371c38c8c0443e0">validateNetworkState</a>() const</td><td class="entry"><a class="el" href="classgridfire_1_1_defined_engine_view.html">gridfire::DefinedEngineView</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
|
||||
<tr class="even"><td class="entry"><a class="el" href="classgridfire_1_1_engine.html#a2e7970bed2100699f226f4141d5db037">~Engine</a>()=default</td><td class="entry"><a class="el" href="classgridfire_1_1_engine.html">gridfire::Engine</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
|
||||
<tr class="odd"><td class="entry"><a class="el" href="classgridfire_1_1_engine_view.html#a994660f2d553f3a123512dc5eb421e74">~EngineView</a>()=default</td><td class="entry"><a class="el" href="classgridfire_1_1_engine_view.html">gridfire::EngineView< DynamicEngine ></a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
|
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