Here is a list of all namespace members with links to the namespace documentation for each member:

- s -

• s : app::pyrosetta_toolkit::modules::SQLPDB , app::pyrosetta_toolkit::window_modules::interactive_terminal::interactive_terminal
• SA : amino_acids
• safe_dump() : yaml
• safe_dump_all() : yaml
• safe_load() : yaml
• safe_load_all() : yaml
• safely_create_singleton() : utility::thread
• safely_prepare_statement() : basic::database
• safely_read_from_database() : basic::database
• safely_write_to_database() : basic::database
• same_ignoring_spaces() : utility
• sample_dna_interface() : demo::D110_DNA_interface
• sample_docking() : demo::D100_Docking
• sample_folding() : demo::D060_Folding
• sample_ligand_interface() : demo::D120_Ligand_interface
• sample_refinement() : demo::D070_Refinement
• sample_single_loop_modeling() : demo::D080_Loop_modeling
• SAVE_ARCHIVE : basic
• save_basic_blueprint() : app::pyrosetta_toolkit::modules::tools::output
• save_basic_resfile() : app::pyrosetta_toolkit::modules::tools::output
• save_FASTA() : app::pyrosetta_toolkit::modules::tools::output
• save_FASTA_PDBLIST() : app::pyrosetta_toolkit::modules::tools::output
• save_loop_file() : app::pyrosetta_toolkit::modules::tools::output
• save_param_path_list() : app::pyrosetta_toolkit::modules::tools::output
• save_resfile_w_designdic() : app::pyrosetta_toolkit::modules::tools::output
• saveSeqFile() : app::pyrosetta_toolkit::modules::tools::output
• SAXS : basic
• SBin6D : numeric::geometry::hashing
• sbisect() : numeric::kinematic_closure
• sbyte : ObjexxFCL
• scaffold_loop : basic::options::OptionKeys::AnchoredPDBCreator
• scaffold_pdb : basic::options::OptionKeys::AnchoredPDBCreator
• scalar_multiply() : PyMOLPyRosettaServer
• scalar_product() : numeric
• scalar_triple_product() : Equations , PhiPsi
• scale_axes() : PyMOLPyRosettaServer
• scan() : yaml
• scanning() : demo::D090_Ala_scan
• scanning_analysis() : demo::D090_Ala_scan
• scientific_Fstring_of() : ObjexxFCL
• scientific_string_of() : ObjexxFCL
• scipy() : numeric::kinematic_closure
• SCORE : basic
• score : test::G100_Functions_Input , test::G205_Module_RegionalScoring , test::Workshop4test , test::Workshop8test
• score2 : test::Workshop4test
• score3 : test::Workshop4test
• score_analysis : test::G204_Module_ScoreAnalysis
• SCORE_BEGIN_NOTIFY : basic
• SCORE_DOT : basic
• SCORE_END_NOTIFY : basic
• SCORE_FINALIZE : basic
• score_high : app::surface_docking::surface_docking
• SCORE_LONG_RANGE_ENERGIES : basic
• SCORE_NEIGHBOR_ENERGIES : basic
• SCORE_ONEBODY_ENERGIES : basic
• score_pack : app::surface_docking::surface_docking
• score_PDBLIST() : app::pyrosetta_toolkit::modules::tools::output
• SCORE_SETUP : basic
• score_types : test::T200_Scoring
• ScoredPDBList : app::pyrosetta_toolkit::modules::ScoreAnalysis
• scorefxn : PyMOL_demo , test::G101_Functions_Output , test::G205_Module_RegionalScoring , test::T010_LoadPDB , test::T150_PyMOL_Integration , test::T200_Scoring , test::T250_Constraints , test::T400_Refinement , test::T500_Packing , test::T660_LoopBuilding , test::T800_ClassicRelax , test::T880_Other , test::Workshop3test , test::Workshop5test , test::Workshop6test , test::Workshop7test
• scorefxn2 : test::Workshop3test
• scorefxn_high : demo::D060_Folding , docking , loops , loops_kic , test::T650_LoopsKIC , test::Workshop7test
• scorefxn_high_min : docking
• scorefxn_low : demo::D060_Folding , docking , loops , loops_kic , test::T650_LoopsKIC , test::Workshop7test
• scores : demo::D060_Folding
• ScoreTypesRegistry : src
• scpn() : numeric::kinematic_closure::radians , numeric::kinematic_closure
• script_root_dir : BuildPackagedBindings
• scwrl() : app::pyrosetta_toolkit::modules::help
• sdf2mdl() : toolbox::load_ligand
• se_cutoff : sequence_recovery
• sec() : numeric
• SECONDARY_STRUCTURE_ENERGY : basic
• SECONDARY_STRUCTURE_HSPAIR_ENERGY : basic
• SECONDARY_STRUCTURE_SHEETS_FROM_DIMERS_ENERGY : basic
• SECONDARY_STRUCTURE_SSPAIR_ENERGY : basic
• SecondaryStructure() : PhiPsi
• send_char_to_node() : utility
• send_data_to_head_node() : basic::mpi
• send_double_to_node() : utility
• send_doubles_to_node() : utility
• send_integer_to_node() : utility
• send_integers_to_node() : utility
• send_string_to_node() : utility
• seq : PyMOL_demo , test::T850_SubClassing
• seq_mover : test::Workshop5test
• seq_recov_filename : sequence_recovery
• sequence : demo::D060_Folding
• SEQUENCE_COMPARISON : basic
• sequence_match_position : usec
• sequence_match_sequence : usec
• sequential() : utility::keys
• serialize() : numeric , yaml
• serialize_all() : yaml
• sessionCOP : utility::sql_database
• sessionOP : utility::sql_database
• Set() : src , src::utility
• set_boolean_option() : basic::options
• set_boolean_vector_option() : basic::options
• set_cache_size() : basic::database
• set_default_call_policies() : exclude
• set_file_option() : basic::options
• set_file_vector_option() : basic::options
• set_integer_option() : basic::options
• set_integer_vector_option() : basic::options
• set_logging_handler() : src::logging_support
• set_main_exit_callback() : utility
• set_option() : basic::options
• set_real_option() : basic::options
• set_real_vector_option() : basic::options
• set_spectrum() : PyMOLPyRosettaServer
• set_string_option() : basic::options
• set_string_vector_option() : basic::options
• setLoopBreak() : app::pyrosetta_toolkit::modules::tools::loops
• setup_held_type() : exclude
• SETUP_NBLIST : basic
• setup_tag2string() : basic
• sf : app::delta_score_per_mutation , test::Workshop9test
• sf_new : test::T850_SubClassing , test::T860_SubClassing_EnergyMethods , test::T870_SubClassing_EnergyMethods2
• sformat_idxof() : numeric::random
• sfxn : test::T220_AtomAtomPairEnergies
• shear_mover : test::Workshop5test
• shearmover : test::T400_Refinement
• shearmoves : demo::D070_Refinement
• shit_stat_altpos : clean_pdb_keep_ligand
• shit_stat_insres : clean_pdb_keep_ligand
• shit_stat_misdns : clean_pdb_keep_ligand
• shit_stat_modres : clean_pdb_keep_ligand
• short_frag_filename : demo::D060_Folding
• short_frag_length : demo::D060_Folding
• short_inserts : demo::D060_Folding
• short_of() : ObjexxFCL
• short_to_long : amino_acids
• show_accessed_options_T() : utility::options
• show_license() : app::pyrosetta_toolkit::modules::help
• show_option_map() : basic::resource_manager
• show_option_vector_map() : basic::resource_manager
• show_time() : basic
• show_time_on_cerr : basic
• show_unused_options_T() : utility::options
• showPose() : app::pyrosetta_toolkit::modules::tools::output
• SHRINK_FACTOR : basic
• SIDECHAINMCMOVER : basic
• SIDECHAINMOVER : basic
• sign() : numeric::linear_algebra , numeric , ObjexxFCL
• sign_transfered() : numeric
• silent : basic::options
• SILENT_FILL_POSE : basic
• SILENT_FILL_STRUCT : basic
• SILENT_READ_TAG_TEST : basic
• SILENT_SET_POSE_COORDS : basic
• SIMANNEALING : basic
• SimpleInterpolatorCOP : numeric::interpolation::spline
• SimpleInterpolatorOP : numeric::interpolation::spline
• SIMPLEINTGRAPH : basic
• SimpleTokenCOP : numeric::expression_parser
• SimpleTokenOP : numeric::expression_parser
• simulate_mpi_message_type : utility
• SimulateMPIMessageCOP : utility
• SimulateMPIMessageOP : utility
• sin_cos_range() : numeric
• sin_of() : numeric
• sinc() : numeric::statistics
• sincos() : numeric::kinematic_closure::radians , numeric::kinematic_closure
• SINFXN() : numeric::crick_equations
• single_line_arrays : utility::json_spirit
• sinh_taylor() : numeric::statistics
• SixDCoordinateBinnerCOP : numeric::geometry::hashing
• SixDCoordinateBinnerOP : numeric::geometry::hashing
• size : amino_acids
• Size : numeric::random , numeric
• size() : ObjexxFCL
• Size : platform
• Size3 : numeric::geometry::hashing
• Size4 : numeric::geometry::hashing
• Size6 : numeric::geometry::hashing
• sized() : ObjexxFCL
• skip() : ObjexxFCL::format , utility::io
• skip_sitegraft_repack : local
• skipl : numeric::kinematic_closure
• Sleep() : BuildBindings
• SleepPrecise() : BuildBindings
• slid : test::Workshop7test
• slide : test::Workshop7test
• slide_criteria_type : make_symmdef_file_denovo
• slide_criteria_val : make_symmdef_file_denovo
• slide_into_contact : docking , test::T600_Docking
• slide_order : make_symmdef_file_denovo
• slide_type : make_symmdef_file_denovo
• slurp() : utility
• small_mover : test::Workshop5test
• smallest_ring_size() : utility::graph
• smallmover : test::T400_Refinement
• smallmoves : demo::D070_Refinement
• smartfilter : calccontacts
• smpi_char : utility
• smpi_double : utility
• smpi_doubles : utility
• smpi_integer : utility
• smpi_integers : utility
• smpi_string : utility
• sol : extract_scores_and_constraints
• sol_cycles : app::surface_docking::surface_docking
• sol_inner_cycles : app::surface_docking::surface_docking
• sol_outer_cycles : app::surface_docking::surface_docking
• sol_pdb : extract_scores_and_constraints
• sol_pose : app::surface_docking::surface_docking
• solve_sturm() : numeric::kinematic_closure
• SolverType : numeric::kinematic_closure
• some_storage : test::T860_SubClassing_EnergyMethods
• SORT_POOL : basic
• sortObjects() : tools::CppParser
• space() : ObjexxFCL::format
• SPACE() : ObjexxFCL::format
• space() : ObjexxFCL
• SPACE() : ObjexxFCL
• spherical_to_xyz() : numeric
• spin : docking , test::T600_Docking
• spline_from_file() : numeric::interpolation
• spline_interpolate() : numeric::interpolation::spline
• spline_second_derivative() : numeric::interpolation::spline
• split() : utility
• split_obj_file_in_to_chunks() : BuildBindings
• split_to_list() : utility
• split_to_set() : utility
• split_whitespace() : utility
• sq_vec_distance() : numeric::kdtree
• sql : test::G203_Module_SQLPDB
• sqr() : numeric::interpolation::spline , numeric::statistics
• square() : numeric , ObjexxFCL , test::Workshop9test
• SquarerootExpressionCOP : numeric::expression_parser
• SquarerootExpressionOP : numeric::expression_parser
• SRange : ObjexxFCL
• SS() : ObjexxFCL::format
• SSize : numeric , ObjexxFCL , platform
• STAGE1 : basic
• STAGE2 : basic
• STAGE3 : basic
• STAGE4 : basic
• STAGE5 : basic
• stageHeaders() : BuildPackagedBindings
• stageStaticFiles() : BuildPackagedBindings
• standard : basic::options
• standard_packer_task() : src , task
• standard_task_factory() : src , task
• star : ObjexxFCL
• start : test::Workshop5test
• start_clock : basic
• start_file() : basic::options
• start_files() : basic::options
• start_pose : app::surface_docking::surface_docking
• start_rosetta_server() : PyMOLPyRosettaServer
• starting_p : docking , loops , loops_kic , test::T600_Docking , test::T650_LoopsKIC
• starting_p_centroid : docking , loops , loops_kic , test::T650_LoopsKIC
• starting_pose : test::Workshop7test
• startswith() : utility
• state : extract_scores_and_constraints
• std_dev() : numeric::statistics
• std_dev_with_provided_mean() : numeric::statistics
• std_exit_wrapper() : utility::options
• std_scorefxn : app::surface_docking::surface_docking
• stp() : coordlib
• str_dn() : ObjexxFCL
• str_dncase() : ObjexxFCL
• str_type : utility::json_spirit
• str_up() : ObjexxFCL
• str_upcase() : ObjexxFCL
• StrategyFiltered : zlib_stream
• StrategyHuffmanOnly : zlib_stream
• string2float() : utility
• string2int() : utility
• string2Real() : utility
• string2Size() : utility
• string2uint() : utility
• string_of() : ObjexxFCL
• string_split() : utility
• string_split_multi_delim() : utility
• string_split_simple() : utility
• string_to_sha1() : utility
• stringafteroption() : basic::options
• StringOption : basic::options
• StringOptionKey : basic::options
• StringResourceStreamCOP : basic::resource_manager::locator
• StringResourceStreamOP : basic::resource_manager::locator
• StringVectorOption : basic::options
• StringVectorOptionKey : basic::options
• strip() : ObjexxFCL , utility
• strip_whitespace() : ObjexxFCL
• stripped() : ObjexxFCL
• stripped_whitespace() : ObjexxFCL
• sub_matrix_filename : sequence_recovery
• Subject : ObjexxFCL
• SubjectMulti : ObjexxFCL
• SubjectSingle : ObjexxFCL
• subset_mappingCOP : utility
• subset_mappingOP : utility
• substitute_esc_chars() : utility::json_spirit
• subsystem_size : make_symmdef_file_denovo
• subtract() : numeric
• subtract_degree_angles() : basic
• subtract_radian_angles() : basic
• SUBTRACT_SYMBOL : numeric::expression_parser
• SubtractExpressionCOP : numeric::expression_parser
• SubtractExpressionOP : numeric::expression_parser
• subunits : make_symmdef_file_denovo
• success : loops_kic , test::T650_LoopsKIC
• sum() : numeric
• superimpose_to_native : score_app
• surf_coor : PDBInfo
• surface : PDBInfo
• surface_atom_cutoff : local
• surface_residue_cutoff : local
• surface_symm_move() : app::surface_docking::surf_param
• svdcmp() : numeric::linear_algebra
• Svm_node_rosettaOP : utility::libsvm
• Svm_rosettaOP : utility::libsvm
• SW() : ObjexxFCL::format
• sw_high : test::Workshop8test
• sw_low : test::Workshop8test
• swap() : ObjexxFCL , utility::keys , utility
• swap4_aligned() : utility
• swap_no_notify() : ObjexxFCL
• switch : test::Workshop4test
• switch2 : test::Workshop4test
• switch_high : app::surface_docking::surface_docking
• switch_low : app::surface_docking::surface_docking , test::Workshop7test
• symm_type_name : make_symmdef_file_denovo
• sys_sleep() : utility