| apply(Pose &pose) override | protocols::ligand_docking::ga_ligand_dock::GALigandDock | virtual |
| apply_coord_cst_to_sctip(core::pose::PoseOP pose, utility::vector1< core::Size > const &moving_scs) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| calculate_free_ligand_score(core::pose::Pose pose, utility::vector1< core::Size > const &lig_resnos) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| calculate_free_receptor_score(core::pose::Pose pose, utility::vector1< core::Size > const &lig_resnos, utility::vector1< core::Size > const &moving_scs, bool simple=true) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| cartmin_lig_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| clear_info() | protocols::moves::Mover | inlinevirtual |
| clone() const override | protocols::ligand_docking::ga_ligand_dock::GALigandDock | virtual |
| create() | protocols::moves::Mover | virtual |
| debug_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| estimate_dG_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| exact_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| fa_rep_grid_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| fast_relax_lines_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| fast_relax_script_file_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| favor_native_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| final_cartligmin(LigandConformer const &gene, core::pose::Pose &pose) | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| final_exact_cartmin(core::Size nneigh, LigandConformer &gene, core::pose::Pose &pose) | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| final_exact_minimize_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| final_exact_scmin(LigandConformer const &gene, core::pose::Pose &pose) | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| final_solvate(LigandConformer &gene, core::pose::Pose &pose) | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| final_solvate_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| fresh_instance() const override | protocols::ligand_docking::ga_ligand_dock::GALigandDock | virtual |
| frozen_residues_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| full_repack_before_finalmin_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| GALigandDock() | protocols::ligand_docking::ga_ligand_dock::GALigandDock | |
| generate_perturbed_structures(LigandConformer const &gene_initial, GridScorerOP gridscorer, core::Size npool, LigandAligner aligner) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| get_additional_output() override | protocols::ligand_docking::ga_ligand_dock::GALigandDock | virtual |
| 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_movable_scs(core::pose::Pose const &pose, GridScorerCOP gridscore, utility::vector1< core::Size > const &lig_resnos) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| get_name() const override | protocols::ligand_docking::ga_ligand_dock::GALigandDock | virtual |
| get_native_pose() const | protocols::moves::Mover | |
| get_optimizer(LigandConformer const &gene_initial, GridScorerOP gridscorer) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | 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 |
| grid_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| grid_bound_penalty_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| hashsize_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| idealize_and_repack_pose(core::pose::Pose &pose, utility::vector1< core::Size > const &movable_scs, utility::vector1< core::Size > const &lig_resnos) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| info() | protocols::moves::Mover | inlinevirtual |
| info() const | protocols::moves::Mover | inlinevirtual |
| initial_pool_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
| ligid_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| load_initial_pool(LigandConformer const &gene_initial, LigandConformers &genes_sel) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| load_reference_pool(LigandConformer const &gene_initial, utility::vector1< ConstraintInfo > &ref_ligs) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| make_starting_pose_for_virtual_screening(core::pose::Pose const &pose_apo, core::Size const &lig_resno, std::string const ligand_name) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| max_rot_cumulative_prob_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| maxiter_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| min_neighbor_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| move_water_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| Mover() | protocols::moves::Mover | |
| Mover(std::string const &type_name) | protocols::moves::Mover | |
| mover_name() | protocols::ligand_docking::ga_ligand_dock::GALigandDock | static |
| multi_ligands_maxRad_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| multiple_ligands_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| name() | protocols::moves::Mover | inlinestatic |
| ngen_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| npool_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| nrelax_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| nreport_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| optimize_input_H_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| packer_cycles_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| padding_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| parse_my_tag(utility::tag::TagCOP tag, basic::datacache::DataMap &data) override | protocols::ligand_docking::ga_ligand_dock::GALigandDock | virtual |
| pmut_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| Pose typedef | protocols::moves::Mover | |
| pose_native_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| PoseCOP typedef | protocols::moves::Mover | |
| premin_ligand(core::pose::Pose &pose, utility::vector1< core::Size > const &lig_resnos) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| premin_ligand_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| protocol_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| provide_citation_info(basic::citation_manager::CitationCollectionList &) const | protocols::moves::Mover | virtual |
| provide_xml_schema(utility::tag::XMLSchemaDefinition &xsd) | protocols::ligand_docking::ga_ligand_dock::GALigandDock | static |
| ramp_schedule_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| random_oversample_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| redefine_flexscs_at_relax_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| reference_frac_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| reference_frac_auto_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| reference_oversample_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| reference_pool_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | 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 |
| remaining_outputs_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| reset_status() | protocols::moves::Mover | |
| rmsdthreshold_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| rot_energy_cutoff_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| run_docking(LigandConformer const &gene_initial, GridScorerOP gridscore, LigandAligner &aligner, OutputStructureStore &outputs) | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| runmode_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| sample_ring_conformers_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| sc_edge_buffer_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| scfxn_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| scfxn_relax_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
| set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inlinevirtual |
| set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
| set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_type(std::string const &setting) | protocols::moves::Mover | inline |
| setup_ligand_aligner(core::pose::Pose const &pose, utility::vector1< core::Size > const &lig_resnos, utility::vector1< core::Size > movable_scs_in_ref) const | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| setup_params_for_runmode(std::string runmode) | protocols::ligand_docking::ga_ligand_dock::GALigandDock | |
| show(std::ostream &output=std::cout) const | protocols::moves::Mover | virtual |
| sidechains_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| smoothing_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| stdev_multiplier_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| Strings typedef | protocols::moves::Mover | |
| subhash_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| TagCOP typedef | protocols::moves::Mover | |
| test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
| torsion_sampler_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| torsion_sampler_percentage_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| type(const std::string &type_in) | protocols::moves::Mover | inline |
| type() const | protocols::moves::Mover | inline |
| use_mean_maxRad_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
| use_pharmacophore_ | protocols::ligand_docking::ga_ligand_dock::GALigandDock | private |
1.8.7