2025-11-24 09:08:28 -05:00
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2025-11-27 15:06:27 -05:00
< div id = "projectname" > GridFire< span id = "projectnumber" >   v0.7.0_rc2< / span >
2025-11-24 09:08:28 -05:00
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< div id = "projectbrief" > General Purpose Nuclear Network< / div >
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< div class = "headertitle" > < div class = "title" > gridfire::engine::GraphEngine Member List< / div > < / div >
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< p > This is the complete list of members for < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > , including all inherited members.< / p >
< table class = "directory" >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a5970c97be4c7b5b764ce1155b5c7f870" > calculateAllDerivatives< / a > (const std::vector< T > & Y_in, T T9, T rho, T Ye, T mue, std::function< std::optional< size_t > (const fourdst::atomic::Species & )> speciesLookup, const std::function< bool(const reaction::Reaction & )> & reactionLookup) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a23187ad3ee504de46f59e1644c715c9f" > calculateAllDerivatives< / a > (const std::vector< T > & Y_in, const T T9, const T rho, const T Ye, const T mue, const std::function< std::optional< size_t > (const fourdst::atomic::Species & )> speciesLookup, const std::function< bool(const reaction::Reaction & )> & reactionLookup) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#abdd3ea788cbe3448b11969c7bbe09546" > calculateAllDerivativesUsingPrecomputation< / a > (const fourdst::composition::CompositionAbstract & comp, const std::vector< double > & bare_rates, const std::vector< double > & bare_reverse_rates, double T9, double rho, const reaction::ReactionSet & activeReactions) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ac7e4624ed6eee72e7a8df42381d098bb" > calculateEpsDerivatives< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a194b03e287ec31348583f8d2078d4906" > calculateEpsDerivatives< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho, const reaction::ReactionSet & activeReactions) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aaff9cdc04ca01e7c927d36476bcf5da4" > calculateMolarReactionFlow< / a > (const reaction::Reaction & reaction, const fourdst::composition::CompositionAbstract & comp, double T9, double rho) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aab80f2ab29ad9c7867e75e499148aa1f" > calculateMolarReactionFlow< / a > (const reaction::Reaction & reaction, const std::vector< T > & Y, T T9, T rho, T Ye, T mue, const std::function< std::optional< size_t > (const fourdst::atomic::Species & )> & speciesIDLookup) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a2e7012382ee44473478ebc37ac36695c" > calculateReverseMolarReactionFlow< / a > (T T9, T rho, std::vector< T > screeningFactors, const std::vector< T > & Y, size_t reactionIndex, const reaction::Reaction & reaction) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a4dd5733c77e9a7ad8b5e541c187fabae" > calculateReverseRate< / a > (const reaction::Reaction & reaction, double T9, double rho, const fourdst::composition::CompositionAbstract & comp) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aa6b07108beeab1bc75c3099c25be7833" > calculateReverseRateTwoBody< / a > (const reaction::Reaction & reaction, double T9, double forwardRate, double expFactor) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a83ef40080c62d667b3fee71237efd2e0" > calculateReverseRateTwoBodyDerivative< / a > (const reaction::Reaction & reaction, double T9, double rho, const fourdst::composition::Composition & comp, double reverseRate) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aee098a65f5cecded199d2c00422b398d" > calculateRHSAndEnergy< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ac77d4150b3b070a095fb65346968e51b" > calculateRHSAndEnergy< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho, const reaction::ReactionSet & activeReactions) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a5fadd1bb2692e1527ce24295c77cfc72" > collectAtomicReverseRateAtomicBases< / a > ()< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ae9d4d99c791876c012697fe5a0ba06c8" > collectComposition< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a8f29c77e777fdc6517f2c7778537ba6f" > collectNetworkSpecies< / a > ()< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a2c0c50ba51537a2f565183e2f47eef69" > exportToCSV< / a > (const std::string & filename) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a77d9755e68c81279316c96e6bb160ee4" > exportToDot< / a > (const std::string & filename) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a9ca013f203d7a3ef9d1b9ee4b2982cb0" > generateJacobianMatrix< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#acc28ff627d46d8d4066a1acf830cbe27" > generateJacobianMatrix< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho, const std::vector< fourdst::atomic::Species > & activeSpecies) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ac4f9cd4e2304f681dd9af0f7b751cb81" > generateJacobianMatrix< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho, const SparsityPattern & sparsityPattern) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a2221feee40542efa1c07f01225bd3828" > generateStoichiometryMatrix< / a > () override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ab29d6c4a7c789cf3d75767833c80c658" > getDepth< / a > () const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a663fd2bd0eda255bc242c1dc6338bc11" > getNetReactionStoichiometry< / a > (const reaction::Reaction & reaction)< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > static< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a749cc482a707cb3a38bdd5de894716e2" > getNetworkReactions< / a > () const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a8f5099bfda5f6d6e1494788beff9b7c8" > getNetworkSpecies< / a > () const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a4247cf6a551a7cbc951a733d3c31c325" > getPartitionFunction< / a > () const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a62c6f3bebe931bcd412fb492deb634a5" > getScreeningModel< / a > () const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ae026bc87dc8b24fd78d412ac7e58b148" > getSpeciesDestructionTimescales< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a0ea1eedfd79ccbd3d44241eadd65065b" > getSpeciesDestructionTimescales< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho, const reaction::ReactionSet & activeReactions) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ad67b0022cc783e63ae1954a04c4a68e1" > getSpeciesIndex< / a > (const fourdst::atomic::Species & species) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#afe93df16c69e7e10658c82874759dd2f" > getSpeciesStatus< / a > (const fourdst::atomic::Species & species) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a3c9b57d2842b6b5535313be845ca6175" > getSpeciesTimescales< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a2f196db621e81082430be117c72fa9d0" > getSpeciesTimescales< / a > (const fourdst::composition::CompositionAbstract & comp, double T9, double rho, const reaction::ReactionSet & activeReactions) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aec867f0b43e74c8157f7d5085b55bb96" > getStoichiometryMatrixEntry< / a > (const fourdst::atomic::Species & species, const reaction::Reaction & reaction) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a530a5563c5a7a76650edb1657868a289" > GraphEngine< / a > (const fourdst::composition::Composition & composition, BuildDepthType=NetworkBuildDepth::Full)< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > explicit< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a885887bc4ff09c810e79eb68b79e7e2a" > GraphEngine< / a > (const fourdst::composition::Composition & composition, const partition::PartitionFunction & partitionFunction, BuildDepthType buildDepth=NetworkBuildDepth::Full)< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > explicit< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ad73fec5f24f5ee74020ca70cdaa104e3" > GraphEngine< / a > (const fourdst::composition::Composition & composition, const partition::PartitionFunction & partitionFunction, BuildDepthType buildDepth, NetworkConstructionFlags reactionTypes)< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > explicit< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a00f8aafa14ae665d8e556b35a7934587" > GraphEngine< / a > (const reaction::ReactionSet & reactions)< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > explicit< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a147917aef40c3ec2751d742d3f862c70" > involvesSpecies< / a > (const fourdst::atomic::Species & species) const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ad031cc7869394bd37c0bb65d86153469" > isPrecomputationEnabled< / a > () const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a07acc57c1015903ce3d1b0d0b7f09358" > isStale< / a > (const NetIn & netIn) override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a177a29cbdd8bae5a313cc391932a3cdd" > isUsingReverseReactions< / a > () const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a19305dc4affde99bb84056c9eeda9f1e" > JacobianMatrixState< / a > enum name< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ac02ff3a8828e281209013f5c564083d0" > m_atomicReverseRates< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a903c99fc607b3e36f434ec2070c7344d" > m_config< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aab2701ed1d1262071072175647674b43" > m_constants< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ae2fef545142356c7f2f2f5ae3cba6d90" > m_depth< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a9087124f3e15614e76754a65d441ca08" > m_epsADFun< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a636caa7f8085153424e17dc6e343a326" > m_full_jacobian_sparsity_pattern< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#af68112da3edc1a8c88289b8e7242180e" > m_full_sparsity_set< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#af794d0c7e7b78aebfbbf05381e3531a6" > m_has_been_primed< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aac9f28dd58bc0d40a643885c95c2ab52" > m_indexToSpeciesMap< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a81628fd98da5681396daab00ac573c6c" > m_jac_work< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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 = "classgridfire_1_1engine_1_1_graph_engine.html#a0a8d12341ecf52446faef9dd8c7dc81e" > m_jacobianMatrixStateNameMap< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a8a121839fe3a7a35e4214fd20e753f9f" > m_logger< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a544299e2495c6cac339b767e932e37b3" > m_networkSpecies< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a3413c72ee010534a510160e38c3b2a0c" > m_networkSpeciesMap< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a9f0e38be889a964d0b6e62934a1220db" > m_partitionFunction< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a6b4fe179421269045712cb417aa19eca" > m_precomputedReactionIndexMap< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a08deff0296d504a23056e6f0382dc664" > m_precomputedReactions< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#af7dab9063bb92aac64b6dfa755074739" > m_reactionIDMap< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a249a9237865b0cf6906b360e4cb7c1ec" > m_reactions< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#aac2420a91b43e1a949a48768e6f3b4f2" > m_rhsADFun< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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 = "classgridfire_1_1engine_1_1_graph_engine.html#a3e91570fbffc48748ad352e4554a728b" > m_screeningModel< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#abdff5b7eeb73ed327ba6b758038ef776" > m_screeningType< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a2421bbbdcc9fb02d9cb6e584da393c83" > m_speciesToIndexMap< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#abf6a17a17dbe9a33e3e33de91159f493" > m_stoichiometryMatrix< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a1f4e11a70ce65d544e9800d552a65cc8" > m_usePrecomputation< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ac9a0d4d0eec32145bf8f2b688a1d988d" > m_useReverseReactions< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a4fd4daf4f4ef658e7c0617223a74d824" > m_weakRateInterpolator< / a > < / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a915602acb18a69f34076bea401ffb49d" > mapNetInToMolarAbundanceVector< / a > (const NetIn & netIn) const override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a6ccfb1813ce5b5c9568434f47e06726a" > populateReactionIDMap< / a > ()< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a7e5c8d9b996e5bc7fc130d34dd196a4b" > populateSpeciesToIndexMap< / a > ()< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#ac7814b9922c7fee4c5a2649127dcdadc" > precomputeNetwork< / a > ()< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#acc7f7fb7f0ef96135e7bda4bb532792e" > primeEngine< / a > (const NetIn & netIn) override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a6c5245a27da1b45e10fb410518b79d4e" > rebuild< / a > (const fourdst::composition::CompositionAbstract & comp, BuildDepthType depth) override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a727ae752bcf5d6266a1cf3dedacf50fa" > recordADTape< / a > () const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a90251650123d0d8ce0281e18c4476f45" > setNetworkReactions< / a > (const reaction::ReactionSet & reactions) override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a0e0650a14247a7f43623d58de8eedb19" > setPrecomputation< / a > (bool precompute)< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#af842981deaf84a698b6cbfa66abcb715" > setScreeningModel< / a > (screening::ScreeningType model) override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / 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_graph_engine.html#a959928abbef89fd0a20264ef8b79c111" > setUseReverseReactions< / a > (bool useReverse)< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a9af928bf8a5327d3cb45254c0e59f914" > syncInternalMaps< / a > ()< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > private< / span > < / td > < / tr >
< tr class = "odd" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a7f6d98a9a4f22f1bbc015b1cbb8198e3" > update< / a > (const NetIn & netIn) override< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < span class = "mlabel" > virtual< / span > < / td > < / tr >
< tr class = "even" > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html#a87bf3a33fc21f7da2a26173ebdfa69f7" > validateConservation< / a > () const< / td > < td class = "entry" > < a class = "el" href = "classgridfire_1_1engine_1_1_graph_engine.html" > gridfire::engine::GraphEngine< / a > < / td > < td class = "entry" > < 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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