| atomic_interaction_cutoff() const | core::scoring::methods::WholeStructureEnergy | inlinevirtual |
| bb_hbonds_graph_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | mutableprivate |
| bonus_function(core::Size count_in) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| calculate_energy(utility::vector1< core::conformation::ResidueCOP > const &resvect, utility::vector1< core::Size > const &rotamer_ids, core::Size const substitution_position=0) const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| clean_up_residuearrayannealableenergy_after_packing(core::pose::Pose &pose) | core::scoring::annealing::ResidueArrayAnnealableEnergy | virtual |
| clone() const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| commit_considered_substitution() override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| defines_high_order_terms(pose::Pose const &) const | core::scoring::methods::EnergyMethod | virtual |
| disabled_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | mutableprivate |
| drop_all_edges_for_symmetric_nodes(core::Size const asymm_node) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| EnergyMethod(EnergyMethodCreatorOP creator) | core::scoring::methods::EnergyMethod | |
| eval_atom_derivative(id::AtomID const &id, pose::Pose const &pose, kinematics::DomainMap const &domain_map, ScoreFunction const &sfxn, EnergyMap const &emap, Vector &F1, Vector &F2) const | core::scoring::methods::EnergyMethod | virtual |
| finalize_after_derivatives(pose::Pose &, ScoreFunction const &) const | core::scoring::methods::EnergyMethod | virtual |
| finalize_after_minimizing(core::pose::Pose &pose) const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| finalize_total_energy(core::pose::Pose &pose, core::scoring::ScoreFunction const &, core::scoring::EnergyMap &totals) const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| has_bb_hbond(core::conformation::Residue const &res1, core::conformation::Residue const &res2) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| has_bb_hbond_connection(core::pose::Pose const &pose, core::conformation::Residue const &res1, core::conformation::Residue const &res2) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| has_hbond(core::conformation::Residue const &res1, core::conformation::Residue const &res2, core::Size const res1_index, core::Size const res2_index) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| hbnet_energy_ramping_enum_from_string(std::string const &ramping_string) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| hbnet_energy_ramping_string_from_enum(HBNetEnergyRamping const ramping_enum) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| HBNetEnergy(core::scoring::methods::EnergyMethodOptions const &options) | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| hbonds_graph_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | mutableprivate |
| hbonds_graph_last_accepted_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | mutableprivate |
| indicate_required_context_graphs(utility::vector1< bool > &context_graphs_required) const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| initialize_bb_hbonds_graph(core::pose::Pose const &pose) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| initialize_graphs(core::pose::Pose const &pose) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| max_network_size() const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | inline |
| max_network_size(core::Size const setting) | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| max_network_size_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| method_type() const override | core::scoring::methods::WholeStructureEnergy | virtual |
| minimize_in_whole_structure_context(pose::Pose const &) const | core::scoring::methods::EnergyMethod | virtual |
| neighbour_graph_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | mutableprivate |
| parent typedef | core::scoring::methods::WholeStructureEnergy | |
| parent1 typedef | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| parent2 typedef | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| prepare_rotamers_for_packing(pose::Pose const &, conformation::RotamerSetBase &) const | core::scoring::methods::EnergyMethod | virtual |
| provide_citation_info(basic::citation_manager::CitationCollectionList &) const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| ramping_type_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| report() const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| requires_a_setup_for_scoring_for_residue_opportunity_during_regular_scoring(pose::Pose const &pose) const | core::scoring::methods::EnergyMethod | virtual |
| ResidueArrayAnnealableEnergy() | core::scoring::annealing::ResidueArrayAnnealableEnergy | |
| ResidueArrayAnnealableEnergy(ResidueArrayAnnealableEnergy const &src) | core::scoring::annealing::ResidueArrayAnnealableEnergy | |
| score_types() const | core::scoring::methods::EnergyMethod | inline |
| set_hbnet_energy_ramping(std::string const &ramping_string) | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| set_hbnet_energy_ramping(HBNetEnergyRamping const ramping_enum) | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| set_score_types(EnergyMethodCreatorOP creator) | core::scoring::methods::EnergyMethod | protected |
| set_up_residuearrayannealableenergy_for_packing(core::pose::Pose &pose, core::pack::rotamer_set::RotamerSets const &rotamersets, core::scoring::ScoreFunction const &sfxn) override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| setup_for_derivatives(pose::Pose &pose, ScoreFunction const &sfxn) const | core::scoring::methods::EnergyMethod | virtual |
| setup_for_minimizing(core::pose::Pose &pose, core::scoring::ScoreFunction const &sfxn, core::kinematics::MinimizerMapBase const &minmap) const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| setup_for_packing(pose::Pose &, utility::vector1< bool > const &, utility::vector1< bool > const &) const | core::scoring::methods::EnergyMethod | virtual |
| setup_for_packing_with_rotsets(pose::Pose &pose, pack_basic::RotamerSetsBaseOP const &rotsets, ScoreFunction const &sfxn) const | core::scoring::methods::EnergyMethod | virtual |
| setup_for_scoring(pose::Pose &, ScoreFunction const &) const | core::scoring::methods::EnergyMethod | virtual |
| setup_for_scoring_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, basic::datacache::BasicDataCache &residue_data_cache) const | core::scoring::methods::EnergyMethod | virtual |
| show_additional_info(std::ostream &, pose::Pose &, bool) const | core::scoring::methods::EnergyMethod | virtual |
| symm_info_ | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | mutableprivate |
| symmetrize_hbonds_graph(core::Size const node1, core::Size const node2, utility::vector1< core::conformation::ResidueCOP > const &resvect) const | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | private |
| update_residue_for_packing(pose::Pose &, Size resid) const | core::scoring::methods::EnergyMethod | virtual |
| version() const override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | virtual |
| WholeStructureEnergy(EnergyMethodCreatorOP) | core::scoring::methods::WholeStructureEnergy | |
| ~HBNetEnergy() override | core::pack::guidance_scoreterms::hbnet_energy::HBNetEnergy | |
| ~ResidueArrayAnnealableEnergy() | core::scoring::annealing::ResidueArrayAnnealableEnergy | virtual |
| ~WholeStructureEnergy() override | core::scoring::methods::WholeStructureEnergy | inline |
1.8.7