ChemistryLib::PhreeqcIOData::PhreeqcIO Member List

This is the complete list of members for ChemistryLib::PhreeqcIOData::PhreeqcIO, including all inherited members.

_chemical_system	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_clamping_totals	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_concentration_warning_threshold	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_database	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_dt	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_dump	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_knobs	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_mesh	ChemistryLib::ChemicalSolverInterface
_num_chemical_systems	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_output	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_phreeqc_input_file	ChemistryLib::PhreeqcIOData::PhreeqcIO
_reaction_rates	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_use_stream_mode	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
_user_punch	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
active_element_ids_	ChemistryLib::ChemicalSolverInterface	private
activeElementIDs() const	ChemistryLib::ChemicalSolverInterface	inline
callPhreeqc() const	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
chemical_system_index_map	ChemistryLib::ChemicalSolverInterface
ChemicalSolverInterface(MeshLib::Mesh const &mesh, GlobalLinearSolver &linear_solver_)	ChemistryLib::ChemicalSolverInterface	inline
computeSecondaryVariable(std::size_t const ele_id, std::vector< GlobalIndexType > const &chemical_system_indices) override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
executeSpeciationCalculation(double const dt) override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
executeSpeciationCalculationParallel(double const dt)	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
generateInputForSystem(std::size_t chemical_system_id, double const dt) const	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
getComponentList() const override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
getConcentration(int const component_id, GlobalIndexType const chemical_system_id) const override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
getKineticPrefactor(std::size_t reaction_id) const	ChemistryLib::ChemicalSolverInterface	inlinevirtual
getStoichiometricMatrix() const	ChemistryLib::ChemicalSolverInterface	inlinevirtual
initialize() override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
initializeChemicalSystemConcrete(std::vector< double > const &concentrations, GlobalIndexType const &chemical_system_id, MaterialPropertyLib::Medium const &medium, ParameterLib::SpatialPosition const &pos, double const t) override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
instance_pool_	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
linear_solver	ChemistryLib::ChemicalSolverInterface
num_chemistry_threads_	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
operator<<(std::ostream &os, PhreeqcIO const &phreeqc_io)	ChemistryLib::PhreeqcIOData::PhreeqcIO	friend
operator<<(double const dt)	ChemistryLib::PhreeqcIOData::PhreeqcIO	inlineprivate
operator>>(std::istream &in, PhreeqcIO &phreeqc_io)	ChemistryLib::PhreeqcIOData::PhreeqcIO	friend
parseOutputForSystem(std::string_view output_content, std::size_t chemical_system_id)	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
phreeqc_instance_id	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
PhreeqcIO(MeshLib::Mesh const &mesh, GlobalLinearSolver &linear_solver, std::string const &project_file_name, std::string &&database, std::unique_ptr< ChemicalSystem > &&chemical_system, std::vector< ReactionRate > &&reaction_rates, std::unique_ptr< UserPunch > &&user_punch, std::unique_ptr< Output > &&output, std::unique_ptr< Dump > &&dump, Knobs &&knobs, bool use_stream_mode, int num_chemistry_threads, double concentration_warning_threshold)	ChemistryLib::PhreeqcIOData::PhreeqcIO
readOutputsFromFile()	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
setAqueousSolutionsPrevFromDumpFile() override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
setAqueousSolutionsPrevFromDumpString(std::string_view dump_content)	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
setChemicalSystemConcrete(std::vector< double > const &concentrations, GlobalIndexType const &chemical_system_id, MaterialPropertyLib::Medium const *medium, MaterialPropertyLib::VariableArray const &vars, ParameterLib::SpatialPosition const &pos, double const t, double const dt) override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
updateChemicalSystemFromOutput(std::vector< double > const &accepted_items, std::size_t chemical_system_id)	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
updatePorosityPostReaction(GlobalIndexType const &chemical_system_id, MaterialPropertyLib::Medium const &medium, double &porosity) override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
updateSystemFromOutputLine(std::string_view line, std::size_t chemical_system_id)	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
updateVolumeFractionPostReaction(GlobalIndexType const &chemical_system_id, MaterialPropertyLib::Medium const &medium, ParameterLib::SpatialPosition const &pos, double const porosity, double const t, double const dt) override	ChemistryLib::PhreeqcIOData::PhreeqcIO	virtual
writeInputHeader(std::ostream &os) const	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
writeInputsToFile(double const dt)	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
writeSystemBlock(std::ostream &os, std::size_t chemical_system_id, std::size_t solution_id, std::size_t prev_solution_id, double dt) const	ChemistryLib::PhreeqcIOData::PhreeqcIO	private
~ChemicalSolverInterface()=default	ChemistryLib::ChemicalSolverInterface	virtual
~PhreeqcIO()	ChemistryLib::PhreeqcIOData::PhreeqcIO