| add(core::io::silent::SilentStruct const &, std::string new_tag="keep_silent_tag") | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| add(core::pose::Pose const &, std::string new_tag) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| add(ObjexxFCL::FArray2D_double const &, core::Size nres, std::string new_tag) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| add_elem_to_cache(FArray2D_double &coords, std::string &tag, Address &input_addr) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| add_new(core::pose::Pose const &pose, std::string &tag, Address &address, bool write_to_file, core::Size new_level) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| add_new(core::io::silent::SilentStruct &, std::string &tag, Address &address, bool write_to_file, core::Size new_level) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| add_new(FArray2D_double &, std::string &tag, Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| add_new(FArray2D_double &, std::string &tag, Address &address, bool resolve_remaining_levels) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| add_to_top_level(FArray2D_double &, std::string &tag) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| address(core::Size index) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| address_exists_in_cache(Address &addr) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| address_to_string(std::string &, Address &) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| clear() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| coords() const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | inlineprotected |
| debug_print_addresses() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| debug_print_hierarchy() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| debug_print_size_per_level() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| equal_addresses(Address &address1, Address &address2) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| evaluate(core::pose::Pose const &pose, std::string &best_decoy, utility::vector1< core::Real > &best_rmsd, Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| evaluate(core::io::silent::SilentStruct const &, std::string &best_decoy, utility::vector1< core::Real > &best_rmsd, Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| evaluate(FArray2D_double &, std::string &best_decoy, utility::vector1< core::Real > &best_rmsd, Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| evaluate(FArray2D_double &, std::string &best_decoy, utility::vector1< core::Real > &best_rmsd, Address &address, bool reset_all_levels, bool load_if_missing) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD::evaluate(core::pose::Pose const &, std::string &best_decoy, core::Real &best_rmsd) const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD::evaluate(core::io::silent::SilentStruct const &, std::string &best_decoy, core::Real &best_rmsd) const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD::evaluate(ObjexxFCL::FArray2D_double &, std::string &best_decoy, core::Real &best_rmsd) const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD::evaluate(ObjexxFCL::FArray2D_double &, std::string &best_decoy, core::Real &best_rmsd, core::Size index) const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| evaluate_and_add(core::pose::Pose const &pose, std::string &cluster_center, core::Real &best_rmsd, core::Real transition_threshold) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | virtual |
| evaluate_and_add(ObjexxFCL::FArray2D_double &coords, std::string &best_decoy, core::Real &best_rmsd, core::Real transition_threshold) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| filename() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| filename_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| fill_top_level(Pool_RMSD_OP &top_level_pool) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| finalize() | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | inlinevirtual |
| find(Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| find_address(Address &query, utility::vector1< Address > &addresses) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| first_zero_pos(Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| get(core::Size index, ObjexxFCL::FArray2D_double &result) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| get_addresses_at_level(utility::vector1< Address > &) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| get_tag(core::Size index) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| has_next_level() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| HierarchicalLevel(core::Size nlevels, std::string const &filename) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| HierarchicalLevel(core::Size nlevels) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| HierarchicalLevel(core::Size level, core::Size max_levels) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| less_than(Address &addr1, Address &addr2) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| level() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| level_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| level_find(Address &address, core::Size const &level, std::list< PoolData >::iterator &) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| level_radius(core::Size level) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| level_size(core::Size level) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| lib_full_path(Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| load_pool(Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| max_cache_size(core::Size max_size) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| max_cache_size() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| max_cache_size_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| max_level_index(Address &) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| max_levels_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| natom() const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | inlineprotected |
| next_free_address_index_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| next_level() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| next_level_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| nlevels() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| num_clusters_in_level_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| num_matching_levels(Address &address1, Address &address2) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| pool_cache_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| pool_exists(Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| Pool_RMSD(std::string silent_file) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | inline |
| Pool_RMSD() | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | inline |
| pool_size(Address &address, core::Size level) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| pop_back() | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| print_address(Address &address) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| print_addresses_at_level() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| radius(core::Real radius) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| radius() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| radius_ | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| reset(Address &addr, utility::vector1< core::Real > &rms) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| round(core::Real &rmsd) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| set_excluded_residues(utility::vector1< core::Size > const &excluded_residues) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| set_reserve_size(int max_size) | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
| size() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD::size() const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | inline |
| sort_addresses(utility::vector1< Address > &addresses) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| sort_pool(Pool_RMSD_OP &pool_ptr) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| string_to_address(std::string &, Address &) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | private |
| tag(core::Size index) const | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | inlineprotected |
| test_round() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| top_level_pool_size() | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| write_headers_to_hierarchy(core::io::silent::SilentStructOP &ss) | protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel | |
| ~Pool_RMSD() override | protocols::canonical_sampling::mc_convergence_checks::Pool_RMSD | |
1.8.7