Index A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | R | S | T | U | V | W A add_bulk_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_bulk_species() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_chemdes_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_CRP_and_PHOTO_reactions_to_grain() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_crp_photo_to_grain (uclchem.makerates.Network attribute) (uclchem.makerates.network.Network attribute) add_default_freeze() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) add_desorb_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_excited_surface_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_freeze_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_gas_phase_extrapolation() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) add_species() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) analysis() (in module uclchem.analysis) analyze_element_per_phase() (in module uclchem.analysis) array_to_string() (in module uclchem.makerates.io_functions) B body_count (uclchem.makerates.Reaction attribute) (uclchem.makerates.reaction.Reaction attribute) branching_ratios_checks() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) build_ode_string() (in module uclchem.makerates.io_functions) C change_binding_energy() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) change_reaction_barrier() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) changes_surface_count() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) changes_total_mantle() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) check_and_filter_species() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) check_charge_conservation() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) check_element_conservation() (in module uclchem.analysis) (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) check_error() (in module uclchem.utils) check_for_excited_species() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) check_freeze_and_desorbs() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) check_network() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) check_reaction() (in module uclchem.makerates.io_functions) check_temperature_collision() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) cloud() (in module uclchem.model) collapse() (in module uclchem.model) construct_incidence() (in module uclchem.analysis) convert_gas_to_surf() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) convert_surf_to_bulk() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) CoupledReaction (class in uclchem.makerates.reaction) create_abundance_plot() (in module uclchem.analysis) cshock() (in module uclchem.model) cshock_dissipation_time() (in module uclchem.utils) D derive_phase_from_name() (in module uclchem.analysis) duplicate (uclchem.makerates.Reaction attribute) (uclchem.makerates.reaction.Reaction attribute) duplicate_checks() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) E elementList (in module uclchem.analysis) (in module uclchem.makerates.species) elementMass (in module uclchem.makerates.species) enthalpy (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) excited_species (uclchem.makerates.Network attribute) (uclchem.makerates.network.Network attribute) F find_constituents() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) find_reactant() (in module uclchem.makerates.io_functions) find_similar_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) freeze_checks() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) G generate_ode_bit() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_alpha() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_beta() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_change_df() (in module uclchem.analysis) get_charge() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_desorb_products() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_desorption_freeze_partners() (in module uclchem.makerates.io_functions) get_extrapolation() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_f2py_signature() (in module uclchem.debug) get_freeze_alpha() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_freeze_products() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_freeze_products_list() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_gamma() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_mass() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_n_atoms() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_name() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) get_network() (in module uclchem.makerates.makerates) get_partner() (uclchem.makerates.reaction.CoupledReaction method) get_production_and_destruction() (in module uclchem.analysis) get_products() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_pure_products() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_pure_reactants() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_reactants() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_reaction() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_reaction_dict() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_reaction_index() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_reaction_list() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_reaction_names (in module uclchem.model) get_reaction_network() (in module uclchem.utils) get_reaction_table() (in module uclchem.utils) get_reaction_type() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_reactions_by_types() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_reactions_on_grain() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_reduced_mass() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_sorted_products() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_sorted_reactants() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_source() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_specie() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_species() (in module uclchem.utils) get_species_dict() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_species_list() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) get_species_table() (in module uclchem.utils) get_temphigh() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_templow() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) get_total_swap() (in module uclchem.analysis) H hot_core() (in module uclchem.model) I index_important_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) index_important_species() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) is_bulk_reaction() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) is_bulk_species() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) is_gas_reaction() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) is_grain_species() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) is_ice_reaction() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) is_ice_species() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) is_ion() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) is_number() (in module uclchem.makerates.species) is_refractory (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) is_surface_reaction() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) is_surface_species() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) J jshock() (in module uclchem.model) K kida_parser() (in module uclchem.makerates.io_functions) L LoadedNetwork (class in uclchem.makerates.network) M mass (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) module uclchem uclchem.analysis uclchem.constants uclchem.debug uclchem.makerates uclchem.makerates.io_functions uclchem.makerates.makerates uclchem.makerates.network uclchem.makerates.reaction uclchem.makerates.species uclchem.model uclchem.plot uclchem.tests uclchem.utils uclchem.version monoFraction (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) N n_atoms (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) N_PHYSICAL_PARAMETERS (in module uclchem.constants) n_reactions (in module uclchem.constants) n_species (in module uclchem.constants) name (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) NANCheck() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) Network (class in uclchem.makerates) (class in uclchem.makerates.network) O optional_params (in module uclchem.makerates.makerates) output_drops() (in module uclchem.makerates.io_functions) OUTPUT_MODE (in module uclchem.model) outputArrays_to_DataFrame() (in module uclchem.model) P param_list (in module uclchem.makerates.makerates) partner (uclchem.makerates.reaction.CoupledReaction attribute) PHYSICAL_PARAMETERS (in module uclchem.constants) plot_rate_summary() (in module uclchem.plot) plot_species() (in module uclchem.analysis) postprocess() (in module uclchem.model) pre_flight_checklist() (in module uclchem.model) predict_reduced_mass() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) R rates_to_dy_and_flux() (in module uclchem.analysis) Reaction (class in uclchem.makerates) (class in uclchem.makerates.reaction) reaction_line_formatter() (in module uclchem.model) reaction_list (uclchem.makerates.Network property) (uclchem.makerates.network.Network property) reaction_names (uclchem.model.ReactionNamesStore attribute) reaction_types (in module uclchem.makerates.reaction) ReactionNamesStore (class in uclchem.model) reactions (uclchem.makerates.Network property) (uclchem.makerates.network.Network property) read_analysis() (in module uclchem.analysis) read_grain_assisted_recombination_file() (in module uclchem.makerates.io_functions) read_output_file() (in module uclchem.analysis) read_rate_file() (in module uclchem.analysis) read_reaction_file() (in module uclchem.makerates.io_functions) read_species_file() (in module uclchem.makerates.io_functions) remove_reaction() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) remove_reaction_by_index() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) remove_species() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) run_makerates() (in module uclchem.makerates) (in module uclchem.makerates.makerates) S set_alpha() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_beta() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_desorb_products() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) set_extrapolation() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_freeze_products() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) set_gamma() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_n_atoms() (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) set_partner() (uclchem.makerates.reaction.CoupledReaction method) set_products() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_reactants() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_reaction() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) set_reaction_dict() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) set_reduced_mass() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_source() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_specie() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) set_species_dict() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) set_temphigh() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) set_templow() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) solidFraction (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) sort_reactions() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) sort_species() (uclchem.makerates.Network method) (uclchem.makerates.network.Network method) source (uclchem.makerates.Reaction attribute) (uclchem.makerates.reaction.Reaction attribute) Species (class in uclchem.makerates) (class in uclchem.makerates.species) species (uclchem.makerates.Network property) (uclchem.makerates.network.Network property) species_list (uclchem.makerates.Network property) (uclchem.makerates.network.Network property) species_ode_string() (in module uclchem.makerates.io_functions) symbols (in module uclchem.makerates.species) T test_ode_conservation() (in module uclchem.tests) TIMEPOINTS (in module uclchem.constants) to_UCL_format() (uclchem.makerates.Reaction method) (uclchem.makerates.reaction.Reaction method) (uclchem.makerates.Species method) (uclchem.makerates.species.Species method) total_element_abundance() (in module uclchem.analysis) truncate_line() (in module uclchem.makerates.io_functions) tunneling_reaction_types (in module uclchem.makerates.reaction) U uclchem module uclchem.analysis module uclchem.constants module uclchem.debug module uclchem.makerates module uclchem.makerates.io_functions module uclchem.makerates.makerates module uclchem.makerates.network module uclchem.makerates.reaction module uclchem.makerates.species module uclchem.model module uclchem.plot module uclchem.tests module uclchem.utils module uclchem.version module user_defined_bulk (uclchem.makerates.Network attribute) (uclchem.makerates.network.Network attribute) V volcFraction (uclchem.makerates.Species attribute) (uclchem.makerates.species.Species attribute) W write_evap_lists() (in module uclchem.makerates.io_functions) write_f90_constants() (in module uclchem.makerates.io_functions) write_jacobian() (in module uclchem.makerates.io_functions) write_network_file() (in module uclchem.makerates.io_functions) write_odes_f90() (in module uclchem.makerates.io_functions) write_outputs() (in module uclchem.makerates.io_functions) write_python_constants() (in module uclchem.makerates.io_functions) write_reactions() (in module uclchem.makerates.io_functions) write_species() (in module uclchem.makerates.io_functions)
