 |
Rosetta Core
2014.35
|
|
Rosetta Core
2014.35
|
This is the complete list of members for core::scoring::rna::StackElecEnergy, including all inherited members.
| __pad0__ | core::scoring::rna::StackElecEnergy | |
| atomic_interaction_cutoff() const | core::scoring::rna::StackElecEnergy | virtual |
| backbone_backbone_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const | core::scoring::methods::TwoBodyEnergy | virtual |
| backbone_sidechain_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const | core::scoring::methods::TwoBodyEnergy | virtual |
| base_base_only_ | core::scoring::rna::StackElecEnergy | private |
| bump_energy_backbone(conformation::Residue const &, conformation::Residue const &, pose::Pose const &, ScoreFunction const &, EnergyMap &) const | core::scoring::methods::TwoBodyEnergy | virtual |
| bump_energy_full(conformation::Residue const &, conformation::Residue const &, pose::Pose const &, ScoreFunction const &, EnergyMap &) const | core::scoring::methods::TwoBodyEnergy | virtual |
| check_base_base_OK(conformation::Residue const &rsd1, conformation::Residue const &rsd2, Size const &m, Size const &n) const | core::scoring::rna::StackElecEnergy | private |
| clone() const | core::scoring::rna::StackElecEnergy | virtual |
| ContextIndependentTwoBodyEnergy(EnergyMethodCreatorOP) | core::scoring::methods::ContextIndependentTwoBodyEnergy | |
| coulomb() const | core::scoring::rna::StackElecEnergy | inlineprotected |
| coulomb_ | core::scoring::rna::StackElecEnergy | private |
| defines_high_order_terms(pose::Pose const &) const | core::scoring::methods::EnergyMethod | virtual |
| defines_intrares_dof_derivatives(pose::Pose const &p) const | core::scoring::methods::TwoBodyEnergy | virtual |
| defines_intrares_energy(EnergyMap const &) const | core::scoring::rna::StackElecEnergy | inlinevirtual |
| defines_intrares_energy_for_residue(conformation::Residue const &res) const | core::scoring::methods::TwoBodyEnergy | virtual |
| defines_score_for_residue_pair(conformation::Residue const &rsd1, conformation::Residue const &rsd2, bool res_moving_wrt_eachother) const | core::scoring::rna::StackElecEnergy | virtual |
| divides_backbone_and_sidechain_energetics() const | core::scoring::methods::ShortRangeTwoBodyEnergy | virtual |
| EnergyMethod(EnergyMethodCreatorOP creator) | core::scoring::methods::EnergyMethod | |
| EnergyMethod(EnergyMethod const &src) | core::scoring::methods::EnergyMethod | |
| eval_atom_derivative(id::AtomID const &atom_id, pose::Pose const &pose, kinematics::DomainMap const &domain_map, ScoreFunction const &, EnergyMap const &weights, Vector &F1, Vector &F2) const | core::scoring::rna::StackElecEnergy | virtual |
| core::scoring::methods::ContextIndependentTwoBodyEnergy::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 |
| eval_intrares_derivatives(conformation::Residue const &rsd, ResSingleMinimizationData const &min_data, pose::Pose const &pose, EnergyMap const &weights, utility::vector1< DerivVectorPair > &atom_derivs) const | core::scoring::methods::TwoBodyEnergy | virtual |
| eval_intrares_energy(conformation::Residue const &, pose::Pose const &, ScoreFunction const &, EnergyMap &) const | core::scoring::rna::StackElecEnergy | inlinevirtual |
| eval_intrares_energy_ext(conformation::Residue const &rsd, ResSingleMinimizationData const &data_cache, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const | core::scoring::methods::TwoBodyEnergy | virtual |
| eval_intraresidue_dof_derivative(conformation::Residue const &rsd, ResSingleMinimizationData const &min_data, id::DOF_ID const &dof_id, id::TorsionID const &torsion_id, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights) const | core::scoring::methods::TwoBodyEnergy | virtual |
| eval_residue_pair_derivatives(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResSingleMinimizationData const &, ResSingleMinimizationData const &, ResPairMinimizationData const &min_data, pose::Pose const &pose, EnergyMap const &weights, utility::vector1< DerivVectorPair > &r1_atom_derivs, utility::vector1< DerivVectorPair > &r2_atom_derivs) const | core::scoring::methods::TwoBodyEnergy | virtual |
| evaluate_rotamer_background_energies(conformation::RotamerSetBase const &set, conformation::Residue const &residue, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights, utility::vector1< core::PackerEnergy > &energy_vector) const | core::scoring::methods::ShortRangeTwoBodyEnergy | virtual |
| evaluate_rotamer_background_energy_maps(conformation::RotamerSetBase const &set, conformation::Residue const &residue, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights, utility::vector1< EnergyMap > &emaps) const | core::scoring::methods::ShortRangeTwoBodyEnergy | virtual |
| evaluate_rotamer_intrares_energies(conformation::RotamerSetBase const &set, pose::Pose const &pose, ScoreFunction const &sfxn, utility::vector1< core::PackerEnergy > &energies) const | core::scoring::methods::TwoBodyEnergy | virtual |
| evaluate_rotamer_intrares_energy_maps(conformation::RotamerSetBase const &set, pose::Pose const &pose, ScoreFunction const &sfxn, utility::vector1< EnergyMap > &emaps) const | core::scoring::methods::TwoBodyEnergy | virtual |
| evaluate_rotamer_pair_energies(conformation::RotamerSetBase const &set1, conformation::RotamerSetBase const &set2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights, ObjexxFCL::FArray2D< core::PackerEnergy > &energy_table) const | core::scoring::methods::ShortRangeTwoBodyEnergy | virtual |
| finalize_after_derivatives(pose::Pose &, ScoreFunction const &) const | core::scoring::methods::EnergyMethod | virtual |
| finalize_total_energy(pose::Pose &pose, ScoreFunction const &, EnergyMap &) const | core::scoring::rna::StackElecEnergy | virtual |
| get_count_pair_function(Size const res1, Size const res2, pose::Pose const &pose, ScoreFunction const &) const | core::scoring::rna::StackElecEnergy | virtual |
| get_count_pair_function(conformation::Residue const &rsd1, conformation::Residue const &rsd2) const | core::scoring::rna::StackElecEnergy | virtual |
| get_intrares_countpair(conformation::Residue const &, pose::Pose const &, ScoreFunction const &) const | core::scoring::rna::StackElecEnergy | virtual |
| get_stack_elec_deriv(Vector const &r_i, Vector const &r_j, Real const &i_charge, Real const &j_charge, Matrix const &M_i) const | core::scoring::rna::StackElecEnergy | private |
| get_stack_elec_score(Vector const &r_i, Vector const &r_j, Real const &i_charge, Real const &j_charge, Matrix const &M_i, Real &cos_kappa2) const | core::scoring::rna::StackElecEnergy | private |
| indicate_required_context_graphs(utility::vector1< bool > &) const | core::scoring::rna::StackElecEnergy | inlinevirtual |
| is_rna_base(conformation::Residue const &rsd1, Size const &m) const | core::scoring::rna::StackElecEnergy | private |
| method_type() const | core::scoring::methods::ContextIndependentTwoBodyEnergy | virtual |
| might_be_designing_ | core::scoring::rna::StackElecEnergy | mutableprivate |
| minimize_in_whole_structure_context(pose::Pose const &pose) const | core::scoring::rna::StackElecEnergy | virtual |
| parent typedef | core::scoring::methods::ContextIndependentTwoBodyEnergy | |
| prepare_rotamers_for_packing(pose::Pose const &, conformation::RotamerSetBase &) const | core::scoring::methods::EnergyMethod | virtual |
| requires_a_setup_for_derivatives_for_residue_opportunity(pose::Pose const &pose) const | core::scoring::methods::TwoBodyEnergy | virtual |
| requires_a_setup_for_derivatives_for_residue_pair_opportunity(pose::Pose const &pose) const | core::scoring::methods::TwoBodyEnergy | virtual |
| requires_a_setup_for_scoring_for_residue_opportunity(pose::Pose const &pose) const | core::scoring::methods::TwoBodyEnergy | virtual |
| requires_a_setup_for_scoring_for_residue_pair_opportunity(pose::Pose const &pose) const | core::scoring::methods::TwoBodyEnergy | virtual |
| residue_pair_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &, EnergyMap &emap) const | core::scoring::rna::StackElecEnergy | virtual |
| residue_pair_energy_ext(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResPairMinimizationData const &min_data, pose::Pose const &pose, ScoreFunction const &, EnergyMap &emap) const | core::scoring::rna::StackElecEnergy | virtual |
| residue_pair_energy_one_way(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, Real &score_base_base, Real &score_base_bb) const | core::scoring::rna::StackElecEnergy | private |
| score_types() const | core::scoring::methods::EnergyMethod | inline |
| set_score_types(EnergyMethodCreatorOP creator) | core::scoring::methods::EnergyMethod | protected |
| setup_for_derivatives(pose::Pose &pose, ScoreFunction const &) const | core::scoring::rna::StackElecEnergy | virtual |
| setup_for_derivatives_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, ResSingleMinimizationData &min_data) const | core::scoring::methods::TwoBodyEnergy | virtual |
| setup_for_derivatives_for_residue_pair(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResSingleMinimizationData const &minsingle_data1, ResSingleMinimizationData const &minsingle_data2, pose::Pose const &pose, ScoreFunction const &sfxn, ResPairMinimizationData &data_cache) const | core::scoring::methods::TwoBodyEnergy | virtual |
| setup_for_minimizing(pose::Pose &pose, ScoreFunction const &sfxn, kinematics::MinimizerMapBase const &min_map) const | core::scoring::rna::StackElecEnergy | virtual |
| setup_for_minimizing_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, kinematics::MinimizerMapBase const &minmap, ResSingleMinimizationData &res_data_cache) const | core::scoring::methods::TwoBodyEnergy | virtual |
| setup_for_minimizing_for_residue_pair(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &, kinematics::MinimizerMapBase const &, ResSingleMinimizationData const &, ResSingleMinimizationData const &, ResPairMinimizationData &pair_data) const | core::scoring::rna::StackElecEnergy | virtual |
| setup_for_packing(pose::Pose &pose, utility::vector1< bool > const &, utility::vector1< bool > const &designing_residues) const | core::scoring::rna::StackElecEnergy | virtual |
| setup_for_scoring(pose::Pose &pose, ScoreFunction const &) const | core::scoring::rna::StackElecEnergy | virtual |
| setup_for_scoring_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, ResSingleMinimizationData &min_data) const | core::scoring::methods::TwoBodyEnergy | virtual |
| setup_for_scoring_for_residue_pair(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResSingleMinimizationData const &minsingle_data1, ResSingleMinimizationData const &minsingle_data2, pose::Pose const &pose, ScoreFunction const &sfxn, ResPairMinimizationData &data_cache) const | core::scoring::methods::TwoBodyEnergy | virtual |
| ShortRangeTwoBodyEnergy(EnergyMethodCreatorOP) | core::scoring::methods::ShortRangeTwoBodyEnergy | |
| sidechain_sidechain_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const | core::scoring::methods::TwoBodyEnergy | virtual |
| StackElecEnergy(methods::EnergyMethodOptions const &options) | core::scoring::rna::StackElecEnergy | |
| StackElecEnergy(StackElecEnergy const &src) | core::scoring::rna::StackElecEnergy | |
| TwoBodyEnergy(EnergyMethodCreatorOP) | core::scoring::methods::TwoBodyEnergy | |
| update_residue_for_packing(pose::Pose &, Size resid) const | core::scoring::methods::EnergyMethod | virtual |
| use_extended_intrares_energy_interface() const | core::scoring::methods::TwoBodyEnergy | virtual |
| use_extended_residue_pair_energy_interface() const | core::scoring::rna::StackElecEnergy | virtual |
| using_extended_method_ | core::scoring::rna::StackElecEnergy | mutableprivate |
| verbose_ | core::scoring::rna::StackElecEnergy | private |
| version() const | core::scoring::rna::StackElecEnergy | privatevirtual |
| ~ContextIndependentTwoBodyEnergy() | core::scoring::methods::ContextIndependentTwoBodyEnergy | virtual |
| ~EnergyMethod() | core::scoring::methods::EnergyMethod | virtual |
| ~ShortRangeTwoBodyEnergy() | core::scoring::methods::ShortRangeTwoBodyEnergy | virtual |
| ~TwoBodyEnergy() | core::scoring::methods::TwoBodyEnergy | virtual |
1.8.7