| accuracy_weights_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| alphas_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| assert_is_calc_chem_shift_atom(ChemicalShiftData const &CS_data) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| atom_has_exp_chemical_shift_data(core::conformation::Residue const &rsd, Size const atomno) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| cs_verbose_mode_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| eval_atom_derivative(id::AtomID const &atom_id, pose::Pose const &pose, kinematics::DomainMap const &domain_map, EnergyMap const &weights, Vector &F1, Vector &F2) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| EXP_chem_shift_data_list_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| finalize_total_energy(pose::Pose const &pose, EnergyMap &totals) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| get_accuracy_weight(std::string const &key) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| get_alpha(std::string const &key) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| get_best_exp_to_calc_chem_shift_mapping(utility::vector1< ChemicalShiftData > const &EXP_chem_shift_data_entry, utility::vector1< Real > const &calc_chem_shift_entry, utility::vector1< Real > &actual_exp_chem_shift_entry, utility::vector1< bool > &do_include_CS_data) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_calc_chem_shift_value(ChemicalShiftData const &CS_data, pose::Pose const &pose) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_calc_chem_shift_value_larmord(ChemicalShiftData const &CS_data, pose::Pose const &pose) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_calc_chem_shift_value_nuchemics(ChemicalShiftData const &CS_data, pose::Pose const &pose) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_chemical_shift_energy(utility::vector1< utility::vector1< Real > > const &calc_chem_shift_list) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_deriv_for_chemical_shift(id::AtomID const &atom_id, ChemicalShiftData const &CS_data, pose::Pose const &pose, Vector &f1, Vector &f2, utility::vector1< std::string > atom_names, std::string atom_name_in, std::string atom_name_whitespace_in, bool is_source_atom, bool is_neighbor_atom) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_deriv_for_chemical_shift_data_atom(pose::Pose const &pose, conformation::Residue const &CS_data_rsd, Size const CS_data_atomno, Vector &f1, Vector &f2) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_magnetic_anisotropy_deriv_for_src_atom(pose::Pose const &pose, conformation::Residue const &ma_source_rsd, Size const ma_source_atomno, Vector &f1, Vector &f2) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_magnetic_anisotropy_deriv_for_src_base(pose::Pose const &pose, conformation::Residue const &ma_source_rsd, Size const chi1_torsion_atomnno, Vector &f1, Vector &f2) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_matching_CS_data_entry(Size const seq_num, std::string const &in_atom_name) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_neighbor_atom(std::string const &key) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| get_realatomdata_index(std::string const &in_atom_name, chemical::AA const res_aa) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_reference_shift(std::string const &key) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| get_ring_current_deriv_for_src_base(pose::Pose const &pose, conformation::Residue const &rc_source_rsd, Size const chi1_torsion_atomnno, Vector &f1, Vector &f2) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| get_total_exp_chemical_shift_data_points() const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| H5_prime_mode_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| import_exp_chemical_shift_data(std::string const &exp_CS_data_filename, utility::vector1< core::Size > &include_res_list, utility::vector1< utility::vector1< std::string > > const &proton_entry_list) | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| include_magnetic_anisotropy_effect_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| include_ring_current_effect_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| indicate_required_context_graphs(utility::vector1< bool > &) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | inline |
| Is_magnetic_anisotropy_source_atom(core::conformation::Residue const &rsd, Size const atomno) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| larmord_beta_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| larmord_distance_cutoff_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| load_larmord_neighbor_atoms(std::string const &filename) | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| load_larmord_parameters(std::string const &filename) | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| load_larmord_reference_shifts(std::string const &filename) | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| load_larmord_weights(std::string const &filename) | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| neighbor_atoms_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| nuchemics_mode_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| path_to_parameter_files_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| reference_shifts_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| RNA_ChemicalShiftPotential() | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | |
| rna_cs_params_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| string_list(std::string const &string_one) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| string_list(std::string const &string_one, std::string const &string_two) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| total_exp_chemical_shift_data_points_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| update_calc_chem_shift_list(pose::Pose const &pose, utility::vector1< utility::vector1< Real > > &cal_chem_shift_list) const | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
| verbose_ | core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential | private |
1.8.7