| apply(core::pose::Pose &pose_to_visualize) override | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | virtual |
| apply_vdw_cut_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| centroid_score_diff_cut_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| centroid_score_ref_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| centroid_scorefxn_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| centroid_scores_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| centroid_screen_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| centroid_vdw_ref_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| clear_info() | protocols::moves::Mover | inlinevirtual |
| clone() const | protocols::moves::Mover | virtual |
| convert_to_centroid(core::pose::Pose &pose) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| copy_coords(core::pose::Pose &pose, core::pose::Pose const &template_pose, ResMap const &ghost_map) const | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| create() | protocols::moves::Mover | virtual |
| define_moving_res(core::pose::Pose const &pose) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| expand_loop_takeoff() const | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | inline |
| expand_loop_takeoff_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| figure_out_fold_tree(ResMap const &ghost_map) const | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| filter_and_save(core::pose::Pose &pose, std::string const &tag) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| filter_based_on_desired_secstruct(char const secstruct, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| filter_big_bin(core::Size const big_bin, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| filter_main_chain_torsion_sets() | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| filter_native_BIG_BINS(core::Size const n, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| filter_native_big_bins_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| fresh_instance() const | protocols::moves::Mover | virtual |
| get_additional_output() | protocols::moves::Mover | virtual |
| get_big_bin(core::Real const phi, core::Real const psi) const | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| get_current_job() const | protocols::moves::Mover | |
| get_current_tag() const | protocols::moves::Mover | inline |
| get_input_pose() const | protocols::moves::Mover | |
| get_last_move_status() const | protocols::moves::Mover | |
| get_main_chain_torsion_set_list(core::Size const n, core::pose::Pose const &pose, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_main_chain_torsion_set_list_c_terminus(core::Size const n, core::pose::Pose const &pose, core::Real const best_energy_cutoff, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_main_chain_torsion_set_list_coarse(core::Size const n, core::pose::Pose const &pose, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_main_chain_torsion_set_list_full(core::Size const n, core::pose::Pose const &pose, core::Real const best_energy_cutoff, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_main_chain_torsion_set_list_n_terminus(core::Size const n, core::pose::Pose const &pose, core::Real const best_energy_cutoff, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_main_chain_torsion_set_list_sample_phi_only(core::Size const n, core::pose::Pose const &pose, core::Real const best_energy_cutoff, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_main_chain_torsion_set_list_sample_psi_only(core::Size const n, core::pose::Pose const &pose, core::Real const best_energy_cutoff, MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_name() const override | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | virtual |
| get_native_pose() const | protocols::moves::Mover | |
| get_rotamer_angle(core::Size const i, core::Size const N_SAMPLE) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| get_self_ptr() const | protocols::moves::Mover | inline |
| get_self_ptr() | protocols::moves::Mover | inline |
| get_self_weak_ptr() const | protocols::moves::Mover | inline |
| get_self_weak_ptr() | protocols::moves::Mover | inline |
| get_type() const | protocols::moves::Mover | inline |
| ghost_loops_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| ghost_map_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| ghost_native_pose_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| ghost_pose_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| info() | protocols::moves::Mover | inlinevirtual |
| info() const | protocols::moves::Mover | inlinevirtual |
| initialize_ghost_pose(core::pose::PoseOP &ghost_pose, std::string const &desired_sequence, core::pose::Pose const &template_pose, ResMap const &ghost_map, core::kinematics::FoldTree f) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| initialize_is_fixed_res() | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| is_fixed_res_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| is_fixed_res_input_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| is_pre_proline_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
| main_chain_torsion_set_for_moving_residues_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| main_chain_torsion_set_lists() const | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| main_chain_torsion_set_lists_real(core::pose::Pose const &pose) const | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| main_chain_torsion_sets_for_moving_residues_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| Mover() | protocols::moves::Mover | |
| Mover(std::string const &type_name) | protocols::moves::Mover | |
| moving_residues_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| moving_residues_input_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| n_sample_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| n_sample_beta_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| name() | protocols::moves::Mover | inlinestatic |
| nstruct_centroid_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| output_centroid_silent_struct(core::pose::Pose const &pose, core::pose::PoseCOP const &native_pose_op, std::string const &silent_file, std::string const &tag) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| parse_my_tag(TagCOP tag, basic::datacache::DataMap &data) | protocols::moves::Mover | virtual |
| Pose typedef | protocols::moves::Mover | |
| PoseCOP typedef | protocols::moves::Mover | |
| prepare_ghost_pose(core::pose::Pose const &pose) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| provide_citation_info(basic::citation_manager::CitationCollectionList &) const | protocols::moves::Mover | virtual |
| rama_energy(core::Size const n, core::pose::Pose const &pose, utility::vector1< core::Real > const &mainchain_torsions) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| rama_pre_pro_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| ramachandran_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| register_options() | protocols::moves::Mover | inlinestatic |
| reinitialize_for_each_job() const | protocols::moves::Mover | virtual |
| reinitialize_for_new_input() const | protocols::moves::Mover | virtual |
| reset_status() | protocols::moves::Mover | |
| rmsd_cutoff_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| sample_cis_omega(MainChainTorsionSetList &main_chain_torsion_set_list) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| sample_residues_recursively(core::Size const which_res, core::Size &count, core::pose::Pose &pose) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| set_apply_vdw_cut(bool const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_centroid_score_diff_cut(core::Real const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_centroid_scorefxn(core::scoring::ScoreFunctionOP const &scorefxn) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_centroid_screen(bool const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
| set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inlinevirtual |
| set_expand_loop_takeoff(bool const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | inline |
| set_filter_native_big_bins(bool const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_fixed_residues(utility::vector1< core::Size > const &fixed_res) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_ghost_loops(bool const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
| set_moving_residues(utility::vector1< core::Size > const &moving_res) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_n_sample(core::Size const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_nstruct_centroid(core::Size const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_rmsd_cutoff(core::Real const setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_silent_file(std::string const &setting) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| set_type(std::string const &setting) | protocols::moves::Mover | inline |
| setup_centroid_screen(core::Real const centroid_score_diff_cut, std::string const ¢roid_weights, core::Size const nstruct_centroid, bool const ghost_loops) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| setup_torsion_sets(core::pose::Pose const &pose) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| show(std::ostream &output=std::cout) const | protocols::moves::Mover | virtual |
| silent_file_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| StepWiseProteinBackboneSampler(protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersCOP working_parameters) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| Strings typedef | protocols::moves::Mover | |
| TagCOP typedef | protocols::moves::Mover | |
| test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
| type(const std::string &type_in) | protocols::moves::Mover | inline |
| type() const | protocols::moves::Mover | inline |
| use_rama_pre_pro_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| which_torsions(core::pose::Pose const &pose) | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
| working_parameters_ | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | private |
| ~StepWiseProteinBackboneSampler() override | protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler | |
1.8.7