- s -

• s() : utility::py::Value
• s2d() : utility::subset_mapping
• s_on_jobs_tabMoved() : ui::task::TaskSubmit
• s_on_queues_finished() : ui::task::TaskSubmit
• safe_output() : basic::TracerImpl
• same() : InterfaceDDGBindInnerJob
• same_dimensions() : numeric::MathMatrix< T >
• same_edge() : utility::graph::DirectedEdge , utility::graph::Edge , utility::graph::LowMemEdge
• same_type_as_me() : numeric::interpolation::spline::CompoundInterpolator , numeric::interpolation::spline::Interpolator , numeric::interpolation::spline::SimpleInterpolator
• SameResidueTypeConstraint() : SameResidueTypeConstraint
• sample() : ChallengeMover , numeric::random::DistributionSampler< T > , SphereSample
• sample1() : SphereSample
• sample2() : SphereSample
• sample3() : SphereSample
• sample4() : SphereSample
• sample5() : SphereSample
• sample6() : SphereSample
• sample7() : SphereSample
• sample_offset() : SphereSample
• samples() : numeric::random::WeightedReservoirSampler< T >
• SampleSecondaryStructureAlignmentMover() : apps::pilot::SampleSecondaryStructureAlignmentMover
• SampleTiltProtocol() : SampleTiltProtocol
• SamplingManager() : SamplingManager
• sampLoc() : numeric::fourier::SO3coeffs
• sanitize_record_arg() : pyrosetta.distributed.cluster.logging_handlers.MsgpackHmacSocketHandler
• sanitize_record_args() : pyrosetta.distributed.cluster.logging_handlers.MsgpackHmacSocketHandler
• sanity_check() : numeric::geometry::hashing::xyzStripeHash , numeric::geometry::hashing::xyzStripeHashWithMeta< T > , SphereSample
• Sasa() : Sasa
• sasa_qdMover() : sasa_qdMover
• satisfaction_cutoff() : CalcsTestMover
• save() : numeric::VoxelArray< _Float, _Value >
• save_archive() : CloudArchiveManagerWrapper
• save_batchlist() : CloudArchiveManagerWrapper
• save_pose() : ui::widgets::PoseEditor
• saveState() : numeric::random::mt19937_RG , numeric::random::RandomGenerator , numeric::random::standard_RG , numeric::random::uniform_RG
• scalar() : utility::options::OptionKey , utility::options::ScalarOptionKey , utility::options::VectorOptionKey
• ScalarOption() : utility::options::ScalarOption
• ScalarOption_T_() : utility::options::ScalarOption_T_< K, T >
• ScalarOptionKey() : utility::options::ScalarOptionKey
• scaled_add() : numeric::sphericalVector< T > , numeric::xyzTriple< T > , numeric::xyzVector< T >
• scaled_assign() : numeric::sphericalVector< T > , numeric::xyzTriple< T > , numeric::xyzVector< T >
• scaled_sub() : numeric::sphericalVector< T > , numeric::xyzTriple< T > , numeric::xyzVector< T >
• scan() : A3BHbsCreatorMover , numeric::expression_parser::ArithmeticScanner
• scan_Evalue() : myspace::DataClass
• scan_Evalue_and_write() : myspace::DataClass
• scan_identifier() : numeric::expression_parser::ArithmeticScanner
• scan_literal() : numeric::expression_parser::ArithmeticScanner
• Scheduler() : myspace::Scheduler
• Schema() : basic::database::schema_generator::Schema
• schema_for_resource_definition_file() : basic::resource_manager::ResourceManager
• schema_has_been_set() : utility::tag::XMLValidator , utility::tag::XMLValidatorImpl
• ScMinMover() : ScMinMover
• score() : fiberHit , FragmentAssemblyMover , numeric::RocPoint , PairScore , pointGroupHit , pseudoTrace , RMS_ScoringScheme , SameResidueTypeConstraint
• score_conformations() : apps::pilot::momeara::HBondConformation
• score_experimental_constraints() : CapriTotalEnergy
• score_function() : DockGlycansProtocol , HemeBindingMover , pyrosetta.distributed.tasks.score.ScorePoseTask
• score_pose() : ZincSiteEvaluator
• score_types_for_method() : MyCI1B_Creator , test.T850_SubClassing.MyNewCI1B_Creator
• ScoreAnalyticEtableBenchmark() : ScoreAnalyticEtableBenchmark
• ScoreBenchmark() : ScoreBenchmark
• ScoreBreakdown() : ScoreBreakdown
• ScoreEachBenchmark() : ScoreEachBenchmark
• ScoreFileView() : ui::viewers::ScoreFileView
• ScoreFragInfo() : ScoreFragInfo
• ScoreFragmentSetMover() : ScoreFragmentSetMover
• ScoreFunctionFingerprintMover() : ScoreFunctionFingerprintMover
• scorefxn() : ExtractATD
• ScoreMover() : ScoreMover
• ScTrials() : ScTrials
• sd() : AbsFunc
• second() : detail::chrono_formatter< FormatContext, OutputIt, Rep, Period >
• SecondaryStruct() : apps::pilot::frankdt::SecondaryStruct
• SecondaryStructureChunk() : SecondaryStructureChunk
• seed() : basic::random::RandomGeneratorSettings
• seed_offset() : basic::random::RandomGeneratorSettings
• seek_beg() : utility::io::icstream , utility::io::irstream , utility::io::izstream
• segment_file_generator() : apps::pilot::frankdt::segment_file_generator
• select_relevant_states() : SimpleDGBindAggregateFunction
• select_working_set() : Solver , Solver_NU
• self_pure_test_virtual_p() : utility::py::OverloadTest
• self_pure_test_virtual_ref() : utility::py::OverloadTest
• self_scsc() : BuriedUnsatPolarsFinder
• self_test_virtual_p() : utility::py::OverloadTest
• self_test_virtual_ref() : utility::py::OverloadTest
• selfcross_c2() : MatchSet
• Semantic_actions() : utility::json_spirit::Semantic_actions< Value_type, Iter_type >
• send() : utility::signals::LinkUnit , utility::signals::SignalHub< ReturnType, Signal >
• send_char_to_node() : utility::SimulateMPI
• send_double_to_node() : utility::SimulateMPI
• send_doubles_to_node() : utility::SimulateMPI
• send_integer_to_node() : utility::SimulateMPI
• send_integers_to_node() : utility::SimulateMPI
• send_signal() : utility::signals::SignalHub< ReturnType, Signal > , utility::signals::TokenHub< ReturnType, Signal >
• send_size_to_node() : utility::SimulateMPI
• send_sizes_to_node() : utility::SimulateMPI
• send_string_to_node() : utility::SimulateMPI
• send_to_master() : utility::io::mpi_stream::basic_mpi_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• senior_authors() : basic::citation_manager::Citation
• separate_complex() : InterfaceDDGMover
• seqpos() : InterfaceDDGMutationTask , MotifScanMover
• sequence() : SecondaryStructureChunk
• SequenceCoords() : SequenceCoords
• SequenceProfileDB() : SequenceProfileDB
• SerializablePose() : SerializablePose
• serialize() : numeric::interpolation::spline::CompoundInterpolator , numeric::interpolation::spline::Interpolator , numeric::interpolation::spline::SimpleInterpolator
• serve_until_stopped() : pyrosetta.distributed.cluster.logging_listeners.SocketListener
• ServerInfo() : ServerInfo
• session() : utility::sql_database::session
• set() : basic::datacache::DataCache< Data > , basic::datacache::HierarchicalDataMap , basic::MetricValue< T > , basic::Report , basic::Reporter , detail::buffer< T > , Mode , numeric::IntervalSet< T > , ui::task::ProjectModel , utility::DenseBoolMap< NUM_ELEMS, BASE_INDEX >
• set_abstract() : utility::tag::XMLSchemaElement
• set_accessed() : utility::options::Option
• set_Aform_torsions() : dsRNA_grow
• set_algorithm() : NativeEnsemble
• set_aligned_chunk() : apps::pilot::AlignChunkMover
• set_all_flags() : numeric::ClusteringTreeNode
• set_allocated() : utility::graph::NegSpaceElement< T >
• set_already_defined_element() : utility::tag::XMLSchemaRepeatableCTNode
• set_already_defined_element_w_alt_name() : utility::tag::XMLSchemaRepeatableCTNode
• set_alternative_search_paths() : utility::io::izstream
• set_angle_stdev() : ZincMatchFilter
• set_angle_weight() : ZincMatchFilter
• set_array() : utility::graph::NegSpaceElement< T >
• set_array_size() : utility::graph::ArrayPool< T >
• set_as_mover() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_atom_sasa_cutoff() : BacksideHbondFinderMover
• set_bb_hbonds() : Features
• set_bfactors() : SimulateCryoMover
• set_bin_width() : numeric::interpolation::InterpolatedPotential< N >
• set_block_size() : utility::graph::ArrayPool< T >
• set_box_size_multiplier() : SimulateCryoMover
• set_c_term_seq() : enumerate_junctions.Component
• set_cartmin() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_cdr() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_cdr_only() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_cdr_range() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_cdrs() : myspace::GraftTester , protocols::antibody::design::AntibodyDesignMoverGenerator
• set_chain_no() : PhProtocol
• set_char_msg() : utility::SimulateMPIMessage
• set_chunk_size() : utility::sql_database::session
• set_cl_value() : utility::options::Option , utility::options::ScalarOption , utility::options::VectorOption
• set_cmd_opts() : mutant_modeler.MutantModeler
• set_cognate_partners() : abbinding
• set_cognate_pdb() : abbinding
• set_color_mode() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• set_commandline_options() : DesignGlycansProtocol , DockGlycansProtocol , GlycomutagenesisProtocol
• set_copies_helix1() : ui::ui_protocols::helical_bundle::HelixOptionWidget
• set_copies_helix1_pitch() : ui::ui_protocols::helical_bundle::HelixOptionWidget
• set_copying_enabled() : ui::ui_protocols::helical_bundle::HelixOptionWidget
• set_data_callback() : ui::task::Node
• set_db_mode() : utility::sql_database::session
• set_db_name() : utility::sql_database::session
• set_db_partition() : utility::sql_database::session
• set_db_to_use_threshold() : ClosabilityScore
• set_default() : abbinding , PhDocking , PhProtocol
• set_default_final_stream() : basic::TracerImpl
• set_default_parameters() : myspace::Scheduler
• set_defaults() : protocols::antibody::design::AntibodyDesignMoverGenerator , TestQuickRelaxMover
• set_density_wt() : MinPackMin
• set_description() : NativeEnsemble
• set_diagonal() : numeric::xyzMatrix< T > , ObjexxFCL::FArray2< T >
• set_dihedral_stdev() : ZincMatchFilter
• set_dihedral_weight() : ZincMatchFilter
• set_dimension() : numeric::MultiDimensionalHistogram
• set_dimension_sizes() : utility::FixedSizeLexicographicalIterator< S > , utility::LexicographicalIterator
• set_dimensionality() : numeric::interpolation::spline::PolycubicSplineBase , numeric::MathNTensorBase< T >
• set_distance_stdev() : ZincMatchFilter
• set_distance_weight() : ZincMatchFilter
• set_distmax() : protocols::moves::SimpleCstMover
• set_distmin() : protocols::moves::SimpleCstMover
• set_dock_high_res_scorefunction() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_dock_low_res_scorefunction() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_double_msg() : utility::SimulateMPIMessage
• set_doubles_msg() : utility::SimulateMPIMessage
• set_drag_mode() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• set_dualspace() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_dump_frequency() : NativeEnsemble
• set_dumppdb() : myspace::DataClass
• set_element_w_attributes() : utility::tag::XMLSchemaRepeatableCTNode
• set_energy_range() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• set_everything_except_delta_omega0_copies_helix1() : ui::ui_protocols::helical_bundle::HelicalBundleDialogueWidget
• set_expression() : numeric::expression_parser::UnaryExpression
• set_extended_drag_mode() : ui::ui_protocols::helical_bundle::HelicalBundlePoseDrawOpenGLWidget
• set_extent() : SimulateCryoMover
• set_file_contents() : utility::io::FileContentsMap , utility::tag::XMLErrorHandler
• set_file_name() : abbinding , PhDocking , PhProtocol , PoseAndData
• set_filter() : ui::network::BowmanModel
• set_first_expression() : numeric::expression_parser::BinaryExpression
• set_foldtree_for_variable_movement() : MinTestMover
• set_ft_mover() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_gauss_multiplier() : SimulateCryoMover
• set_gauss_offset() : SimulateCryoMover
• set_group_subelement() : utility::tag::XMLSchemaRepeatableCTNode
• set_hal_settings() : ui::network::BowmanThread
• set_head() : utility::in_place_list< T >
• set_helix_index() : ui::ui_protocols::helical_bundle::HelicalBundleDialogueWidget
• set_helix_length() : ui::ui_protocols::helical_bundle::HelicalBundleDialogueWidget
• set_high_res_dock_inner_cycles() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_high_res_dock_outer_cycles() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_identity() : numeric::HomogeneousTransform< T >
• set_identity_rotation() : numeric::HomogeneousTransform< T >
• set_identity_transform() : numeric::HomogeneousTransform< T >
• set_image_stack() : SimulateCryoMover
• set_include_neighbor_sc() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_indent() : basic::Emitter
• set_index() : Features , utility::libsvm::Svm_node_rosetta , utility::SimulateMPIMessage
• set_index_and_owner() : utility::graph::UEVertex< V, E >
• set_input_file() : NativeEnsemble
• set_integer_msg() : utility::SimulateMPIMessage
• set_integers_msg() : utility::SimulateMPIMessage
• set_integration_test() : SimulateCryoMover
• set_interpolator() : numeric::interpolation::Histogram< X, Y >
• set_invert() : ui::ui_protocols::helical_bundle::HelicalBundleDialogueWidget
• set_ios_hook() : basic::Tracer , basic::TracerImpl
• set_iterations() : NativeEnsemble
• set_keep_input_scores() : MyScoreMover
• set_kids_naming_func() : utility::tag::XMLSchemaRepeatableCTNode
• set_lastpos() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• set_lb_function() : numeric::interpolation::spline::Interpolator
• set_local_print_channel_name() : basic::Tracer , basic::TracerImpl
• set_loop() : NativeEnsemble
• set_loops_to_virt_ala() : apps::pilot::SampleSecondaryStructureAlignmentMover
• set_lower() : numeric::geometry::BoundingBox< T >
• set_masked_key() : pyrosetta.distributed.cluster.logging_handlers.MsgpackHmacSocketHandler , pyrosetta.distributed.cluster.logging_handlers.MultiSocketHandler
• set_matrix_A() : basic::svd::SVD_Solver
• set_maxiter() : myspace::Scheduler
• set_min_interface() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_min_mover() : ZincMinimize
• set_min_sc() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_model_group() : utility::tag::XMLSchemaComplexType
• set_mover() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_mpi_rank() : utility::SimulateMPI
• set_n_term_seq() : enumerate_junctions.Component
• set_native() : RescoreCenrot
• set_native_pose() : Protocol_MolecularDynamics
• set_neighbor_distance_cutoff() : BacksideHbondFinderMover
• set_new_final_stream() : basic::TracerImpl
• set_next() : utility::graph::NegSpaceElement< T >
• set_next_correspondence() : utility::subset_mapping
• set_next_size() : boost::unordered_object_pool< T, UserAllocator >
• set_nlcontacts() : Features
• set_noise_range() : SimulateCryoMover
• set_nonparametric_COM_vect() : ui::ui_protocols::helical_bundle::HelicalBundlePoseDrawOpenGLWidget
• set_NR() : SimulateCryoMover
• set_nread_limit_for_file() : utility::io::FileContentsMap
• set_num_hyneighbors() : Features
• set_num_neighbors() : Features
• set_num_neighbors_counting_self_static() : utility::graph::Node
• set_num_nodes() : utility::graph::Digraph , utility::graph::Graph , utility::graph::LowMemGraph< _LMNode, _LMEdge >
• set_num_vertices() : utility::graph::UpperEdgeGraph< V, E >
• set_open_mode() : basic::resource_manager::locator::FileListResourceLocator , basic::resource_manager::locator::FileSystemResourceLocator
• set_option_value_cl() : utility::options::OptionCollection
• set_option_value_file() : utility::options::OptionCollection
• set_output_raw_scores() : abbinding
• set_packstat() : Features
• set_parameters() : Spacegroup
• set_params() : numeric::interpolation::Histogram< X, Y >
• set_parent() : basic::datacache::HierarchicalDataMap
• set_partners() : abbinding , PhDocking
• set_pdb_seq_pos() : Features
• set_periodic() : numeric::interpolation::InterpolatedPotential< N >
• set_perlin_noise_multiplier() : SimulateCryoMover
• set_perlin_noise_offset() : SimulateCryoMover
• set_pertscale() : myspace::Scheduler
• set_pH_mode() : PhDocking
• set_pH_neighbor_pack() : PhProtocol
• set_pH_prepack() : PhProtocol
• set_pH_relax() : PhProtocol
• set_phi() : Link , PoseWrap
• set_phi_psi() : Link
• set_pixel_size() : SimulateCryoMover
• set_pka_all() : PhProtocol
• set_pka_rad() : PhProtocol
• set_point() : numeric::HomogeneousTransform< T >
• set_pos_in_owners_list() : utility::graph::DirectedEdge , utility::graph::Edge
• set_pose() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• set_pose_after_closure() : UniformPerturber
• set_position_from_index() : utility::FixedSizeLexicographicalIterator< S > , utility::LexicographicalIterator
• set_postgres_schema_search_path() : utility::sql_database::DatabaseSessionManager
• set_pq_schema() : utility::sql_database::session
• set_pre_process() : abbinding
• set_protein_pack_reps() : mutant_modeler.MutantModeler
• set_psi() : Link
• set_PyExitCallBack() : utility::py::PyExitCallback
• set_quiet() : NativeEnsemble
• set_quote_options() : utility::tag::Tag
• set_random_torsion() : MPDomainAssembly
• set_real_subwidget() : ui::ui_protocols::helical_bundle::HelicalBundleDialogueWidget
• set_ref_pose_from_filename() : DockGlycansProtocol
• set_refine() : abbinding
• set_registry_shift() : apps::pilot::AlignChunkMover
• set_res_no() : PhProtocol
• set_reset_torsion_unaligned() : apps::pilot::AlignChunkMover
• set_resfile() : PhDocking , SetupHotspotMover
• set_residue_selector() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• set_residues() : CartPerturber
• set_resolution() : SimulateCryoMover
• set_root_atomno() : PoseWrap
• set_root_node_naming_func() : utility::tag::XMLSchemaRepeatableCTNode
• set_rosetta_prefix() : mutant_modeler.MutantModeler
• set_rotamer_prot_stats() : PhProtocol
• set_rounds() : CartPerturber
• set_run_locally() : mutant_modeler.MutantModeler
• set_sc_hbonds() : Features
• set_sc_sasa() : Features
• set_sc_temp_ave() : Features
• set_scfxn() : RepackCenrotMover , RescoreCenrot
• set_schema() : utility::tag::XMLValidator , utility::tag::XMLValidatorImpl
• set_score_type() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• set_scorefunction() : protocols::antibody::design::AntibodyDesignMoverGenerator , ZincMinimize
• set_scorefxn() : ScoreEachBenchmark
• set_search_paths() : basic::resource_manager::locator::FileSystemResourceLocator
• set_second_expression() : numeric::expression_parser::BinaryExpression
• set_seed() : numeric::random::RandomGenerator
• set_sequence() : SecondaryStructureChunk
• set_sfxn() : mutant_modeler.MutantModeler
• set_shallow_copy() : basic::datacache::CacheableResRotPairFloatMap
• set_show_accessed_options_flag() : utility::options::OptionCollection
• set_show_unused_options_flag() : utility::options::OptionCollection
• set_size_msg() : utility::SimulateMPIMessage
• set_sizes_msg() : utility::SimulateMPIMessage
• set_skip_scoring() : MyScoreMover
• set_source_size() : utility::subset_mapping
• set_spacegroup() : Spacegroup
• set_ss() : SecondaryStructureChunk
• set_start_coord_csts() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_start_seqpos() : SecondaryStructureChunk
• set_string_msg() : utility::SimulateMPIMessage
• set_subelements_pick_one() : utility::tag::XMLSchemaComplexTypeGenerator
• set_subelements_pick_one_optional() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• set_subelements_pick_one_or_none() : utility::tag::XMLSchemaComplexTypeGenerator
• set_subelements_pick_one_required() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• set_subelements_repeatable() : utility::tag::XMLSchemaComplexTypeGenerator , utility::tag::XMLSchemaComplexTypeGeneratorImpl
• set_subelements_single_appearance_optional() : utility::tag::XMLSchemaComplexTypeGenerator , utility::tag::XMLSchemaComplexTypeGeneratorImpl
• set_subelements_single_appearance_required() : utility::tag::XMLSchemaComplexTypeGenerator , utility::tag::XMLSchemaComplexTypeGeneratorImpl
• set_subelements_single_appearance_required_and_ordered() : utility::tag::XMLSchemaComplexTypeGenerator , utility::tag::XMLSchemaComplexTypeGeneratorImpl
• set_tail() : utility::in_place_list< T >
• set_target_filename() : pyrosetta.protocols.h5_fragment_store_provider.H5PyFragmentStoreProvider
• set_task_factory() : protocols::antibody::design::AntibodyDesignMoverGenerator
• set_temperature() : NativeEnsemble
• set_template() : apps::pilot::AlignChunkMover
• set_term_seq() : enumerate_junctions.Component
• set_termination_codes() : ui::task::NetworkCall
• set_tetrahedral_stdev() : ZincMatchFilter
• set_tetrahedral_weight() : ZincMatchFilter
• set_throw_on_double_registration() : basic::resource_manager::ResourceLoaderFactory , basic::resource_manager::ResourceLocatorFactory
• set_to_beta_strand() : ui::ui_protocols::helical_bundle::HelicalBundleDialogueWidget
• set_token_type() : numeric::expression_parser::SimpleToken
• set_tracer_options() : basic::TracerImpl
• set_transaction_mode() : utility::sql_database::session
• set_transform() : numeric::HomogeneousTransform< T >
• set_ub_function() : numeric::interpolation::spline::Interpolator
• set_unbound_pdbs() : PhDocking
• set_unit() : numeric::MathMatrix< T >
• set_up_foldtree() : HECTMover
• set_up_taskfactory() : HECTMover
• set_upper() : numeric::geometry::BoundingBox< T >
• set_use_conservative_set() : protocols::antibody::task_operations::AddFrameworkProfilesOperation
• set_value() : numeric::expression_parser::LiteralExpression , numeric::expression_parser::VariableExpression , numeric::MathNTensor< T, N > , numeric::MathNTensorBase< T > , ui::ui_protocols::helical_bundle::HelixOptionWidget , utility::libsvm::Svm_node_rosetta , utility::options::Option , utility::options::ScalarOption , utility::options::VectorOption
• set_vary_ca_bond_angles() : UniformPerturber
• set_vector_b() : basic::svd::SVD_Solver
• set_visited() : numeric::ClusteringTreeNode
• set_weight() : numeric::random::WeightedSampler
• set_weights() : NativeEnsemble
• set_wt_RNA_secstruct() : mutant_modeler.MutantModeler
• set_xaxis_rotation_deg() : numeric::HomogeneousTransform< T >
• set_xaxis_rotation_rad() : numeric::HomogeneousTransform< T >
• set_yaxis_rotation_deg() : numeric::HomogeneousTransform< T >
• set_yaxis_rotation_rad() : numeric::HomogeneousTransform< T >
• set_year_and_article() : basic::citation_manager::Citation
• set_zaxis_rotation_deg() : numeric::HomogeneousTransform< T >
• set_zaxis_rotation_rad() : numeric::HomogeneousTransform< T >
• set_zero() : numeric::MathMatrix< T >
• setAccessed() : utility::tag::Tag
• setargs() : CL
• setData() : ui::task::FileTableModel
• setDefaults() : protocols::abinitio::CustomAbinitio
• setDS() : PairScore
• setFilename() : PairScore
• setName() : utility::tag::Tag
• SetObjects() : numeric::VoxelGrid< T >
• SetOfClusters() : SetOfClusters
• setOption() : utility::tag::Tag
• setOptions() : utility::tag::Tag
• sets() : utility::graph::DisjointSets
• setSeed() : numeric::random::mt19937_RG , numeric::random::standard_RG , numeric::random::uniform_RG
• setting() : Spacegroup
• setup() : CenRotDockingMover
• setUp() : DesignBenchmark , DockingBenchmark< dock, TScale > , FastRelaxPerformanceBenchmark
• setup() : HPatchByChainNPDCalculator
• setUp() : InstantiateModulesBenchmark , InteractionGraphPerformanceBenchmark , InterfaceFeaturesTests , LigandDockBenchmark , MinimizerBenchmark< sft, TScale >
• setup() : NBuriedUnsatsCalcultor
• setUp() : OptionCollectionBenchmark , PDB_IOBenchmark , PerformanceBenchmark
• setup() : protocols::abinitio::Application , protocols::abinitio::JumpSpecificAbrelax , pyrosetta.distributed.cluster.logging_listeners.LogRecordRequestHandler , pyrosetta.distributed.cluster.worker_plugins.SocketLoggerPlugin , pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask , pyrosetta.distributed.tasks.score.ScorePoseTask , pyrosetta.distributed.tasks.taskbase.TaskBase
• setUp() : pyrosetta.tests.distributed.cluster.test_smoke.TestBase , pyrosetta.tests.distributed.test_dask.TestDaskDistribution , pyrosetta.tests.distributed.test_viewer.TestViewer
• setup() : SamplingManager
• setUp() : ScoreAnalyticEtableBenchmark , ScoreBenchmark , ScoreEachBenchmark , ShearMoverBenchmark , SmallMoverBenchmark
• setup() : ThisApplication
• setUp() : XMLParseBenchmark
• setup() : zinc1_homodimer_design , zinc2_homodimer_design
• setup_cen_domains() : DomainAssemblerNDocker
• setup_dock_foldtree() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_dock_high_res() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_dock_low_res() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_file_handler() : nacl_rosetta::RosettaInstance
• setup_filter_clashes() : zinc2_homodimer_setup
• setup_filter_stats() : A3BHbsDockDesignMinimizeMover , DougsDockDesignMinimizeMagicMover
• setup_fold() : protocols::abinitio::JumpSpecificAbrelax
• setup_foldtree() : abbinding , PhDocking
• setup_for_current_default_sfxn() : InteractionGraphPerformanceBenchmark
• setup_for_denseig() : InteractionGraphPerformanceBenchmark
• setup_for_linmemig() : InteractionGraphPerformanceBenchmark
• setup_for_mmstd() : FastRelaxPerformanceBenchmark , InteractionGraphPerformanceBenchmark
• setup_for_pdig() : InteractionGraphPerformanceBenchmark
• setup_for_sc12he() : FastRelaxPerformanceBenchmark , InteractionGraphPerformanceBenchmark
• setup_for_sc12sp2() : FastRelaxPerformanceBenchmark , InteractionGraphPerformanceBenchmark
• setup_for_score12() : FastRelaxPerformanceBenchmark , InteractionGraphPerformanceBenchmark
• setup_for_sp2hecart() : FastRelaxPerformanceBenchmark , InteractionGraphPerformanceBenchmark
• setup_fragments() : protocols::abinitio::JumpSpecificAbrelax
• setup_general_min_foldtree() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_grafted_monomer() : zinc2_homodimer_setup
• setup_handler() : pyrosetta.distributed.cluster.logging_handlers.MultiSocketHandler , pyrosetta.distributed.cluster.logging_listeners.SocketListener
• setup_homodimer() : zinc2_homodimer_setup
• setup_input_packed_pose() : pyrosetta.tests.distributed.cluster.test_smoke.ScoresTest
• setup_jumps() : protocols::abinitio::JumpSpecificAbrelax
• setup_LHsampler() : myspace::Scheduler
• setup_locker() : BBG_Cyclic_Mover
• setup_logger() : pyrosetta.tests.distributed.cluster.test_smoke.RuntimeTest
• setup_maps() : CrystFFTDock
• setup_metalsite() : zinc1_homodimer_design , zinc2_homodimer_design
• setup_metalsite_constraints() : zinc1_homodimer_design
• setup_metalsites() : zinc2_homodimer_setup
• setup_minimizer() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_movemap_bb_chi() : zinc1_homodimer_design
• setup_movers() : zinc1_homodimer_design
• setup_native() : CalcIrms
• setup_output_tag() : zinc1_homodimer_design
• setup_pert_foldtree() : A3BHbsDockDesignMinimizeMover , DougsDockDesignMinimizeMagicMover , HotspotPlacementMover
• setup_pert_foldtree_byres() : HotspotPlacementMover
• setup_pH_mode() : PhDocking
• setup_Pmls() : numeric::fourier::SHT
• setup_pose() : TryScoreFilter
• setup_real() : ObjexxFCL::FArray1D< T > , ObjexxFCL::FArray2D< T > , ObjexxFCL::FArray3D< T > , ObjexxFCL::FArray4D< T > , ObjexxFCL::FArray5D< T > , ObjexxFCL::FArray6D< T > , ObjexxFCL::KeyFArray1D< T > , ObjexxFCL::KeyFArray2D< T > , ObjexxFCL::KeyFArray3D< T > , ObjexxFCL::KeyFArray4D< T > , ObjexxFCL::KeyFArray5D< T > , ObjexxFCL::KeyFArray6D< T >
• setup_relax() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_repack_antigen_ab_interface() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_repack_cdrs() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_RepulsiveRampMover() : abbinding
• setup_rna_atoms_for_pose() : CapriTotalEnergy
• setup_rollmoving() : zinc1_homodimer_design
• setup_scorefunctions() : zinc1_homodimer_design
• setup_scorefxns() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_startree() : apps::pilot::SampleSecondaryStructureAlignmentMover
• setup_task_and_repack() : abbinding , PhDocking
• setup_task_factory() : HemeReplace
• setup_task_mm() : SymFixbbMover
• setup_task_operations() : protocols::antibody::design::AntibodyDesignMoverGenerator
• setup_taskfactory() : zinc1_homodimer_design
• setup_taskfactory_scorefunction_movers() : zinc2_homodimer_design
• setup_templates() : protocols::abinitio::JumpSpecificAbrelax
• setup_tf() : XMLprinterMover
• setup_Weights() : numeric::fourier::SHT
• setup_Wig() : numeric::fourier::SHT
• SetupAdjacencyVector() : utility::graph::RingDetection< Graph >
• setUpClass() : pyrosetta.tests.bindings.core.test_pose.TestPoseCacheAccessor , pyrosetta.tests.distributed.cluster.test_smoke.ScoresTest , pyrosetta.tests.distributed.cluster.test_smoke.SmokeTestMulti , pyrosetta.tests.distributed.cluster.test_smoke.TestBase , test.T010_LoadPDB.LoadPDBTest , test.T300_PyJobDistributor.TestPyJobDistributor
• SetupGrid() : numeric::VoxelGrid< T >
• SetupHotspotMover() : SetupHotspotMover
• SetupMover() : SetupMover
• SetWrapper() : ObjexxFCL::SetWrapper< T >
• sfxn() : InterfaceDDGMover , ScoreFunctionFingerprintMover
• shape() : numeric::VoxelArray< _Float, _Value >
• shared_from_this() : basic::datacache::CacheableResRotPairFloatMap , basic::datacache::CacheableString , basic::datacache::CacheableStringFloatMap , basic::datacache::CacheableStringIntegerMap , basic::datacache::CacheableStringMap , basic::datacache::CacheableUint64MathMatrixFloatMap , basic::datacache::DiagnosticData , basic::datacache::WriteableCacheableData , basic::datacache::WriteableCacheableMap
• sharm_invTransform() : numeric::fourier::SHT
• sharm_transform() : numeric::fourier::SHT
• ShearMoverBenchmark() : ShearMoverBenchmark
• sheet_match() : DomainDescription
• shift_set() : ObjexxFCL::FArray1A< T > , ObjexxFCL::FArray1D< T > , ObjexxFCL::FArray1P< T > , ObjexxFCL::FArray2A< T > , ObjexxFCL::FArray2D< T > , ObjexxFCL::FArray2P< T > , ObjexxFCL::FArray3A< T > , ObjexxFCL::FArray3D< T > , ObjexxFCL::FArray3P< T > , ObjexxFCL::FArray4A< T > , ObjexxFCL::FArray4D< T > , ObjexxFCL::FArray4P< T > , ObjexxFCL::FArray5A< T > , ObjexxFCL::FArray5D< T > , ObjexxFCL::FArray5P< T > , ObjexxFCL::FArray6A< T > , ObjexxFCL::FArray6D< T > , ObjexxFCL::FArray6P< T > , ObjexxFCL::FArray< T > , ObjexxFCL::KeyFArray1D< T > , ObjexxFCL::KeyFArray2D< T > , ObjexxFCL::KeyFArray3D< T > , ObjexxFCL::KeyFArray4D< T > , ObjexxFCL::KeyFArray5D< T > , ObjexxFCL::KeyFArray6D< T >
• short_description() : utility::options::Option , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• short_max() : numeric::geometry::hashing::xyzStripeHash , numeric::geometry::hashing::xyzStripeHashWithMeta< T >
• short_min() : numeric::geometry::hashing::xyzStripeHash , numeric::geometry::hashing::xyzStripeHashWithMeta< T >
• short_of() : ObjexxFCL::Fstring
• shortd() : utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• shorter() : numeric::xyzTriple< T > , numeric::xyzVector< T >
• shorter_or_equal() : numeric::xyzTriple< T > , numeric::xyzVector< T >
• shouldVisitTemplateInstantiations() : BinderVisitor
• show() : basic::resource_manager::locator::DatabaseResourceLocator , basic::resource_manager::locator::FileListResourceLocator , basic::resource_manager::locator::FileSystemResourceLocator , basic::resource_manager::locator::NullResourceLocator , basic::resource_manager::ResourceLocator , CCParam , DesignGlycansProtocol , DockGlycansProtocol , GlycanClashCheckMover , GlycomutagenesisProtocol , numeric::HomogeneousTransform< T > , numeric::kdtree::HyperRectangle , numeric::kdtree::KDPoint , numeric::kdtree::KDPointList , numeric::Polynomial_1d , pointGroupHit , pyrosetta.distributed.viewer.core.Viewer , SameResidueTypeConstraint , utility::excn::Exception , utility::Show
• show_accessed_options() : utility::options::OptionCollection
• show_all() : utility::options::OptionCollection
• show_all_hier() : utility::options::OptionCollection
• show_contents() : utility::Inline_File_Provider
• show_cst_grids() : ConstraintConfig
• show_cstset() : ConstraintToolMover
• show_cuts() : ThisApplication
• show_definition() : AbsFunc , CoupledFunc , RepFunc
• show_footer() : NativeEnsemble
• show_header() : NativeEnsemble
• show_help() : utility::options::OptionCollection
• show_help_hier() : utility::options::OptionCollection
• show_inaccessed_user_options() : utility::options::OptionCollection
• show_jumps() : ThisApplication
• show_membrane_position() : MembraneRelaxMover
• show_move_stats() : job_manager.DatabaseWindow
• show_option_help() : utility::options::OptionCollection
• show_option_help_hier() : utility::options::OptionCollection
• show_progress() : NativeEnsemble
• show_sequence() : ConstraintConfig
• show_table_text() : utility::options::OptionCollection
• show_table_Wiki() : utility::options::OptionCollection
• show_unused_options() : utility::options::OptionCollection
• show_user() : utility::options::OptionCollection
• ShowViolation() : protocols::abinitio::ShowViolation
• shrink() : ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< T > , utility::BitVector< B > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyVector< K, T > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::vectorL< L, T, A > , utility::vectorL< L, bool, A >
• SHT() : numeric::fourier::SHT
• sigmoidish_neighbor() : EnvToolMover , MatchSet
• signal_allowed() : utility::signals::BufferedSignalHub< ReturnType, Signal > , utility::signals::SignalHub< ReturnType, Signal >
• SignalHub() : utility::signals::SignalHub< ReturnType, Signal >
• SilentProlineFixMover() : SilentProlineFixMover
• simple_element_naming_func_has_been_set() : utility::tag::XMLSchemaSimpleSubelementList
• SimpleBBMover() : SimpleBBMover
• SimpleCstMover() : protocols::moves::SimpleCstMover
• SimpleDGBindAggregateFunction() : SimpleDGBindAggregateFunction
• SimpleExpressionCreator() : numeric::expression_parser::SimpleExpressionCreator
• SimpleInterpolator() : numeric::interpolation::spline::SimpleInterpolator
• SimplePoseDrawOpenGLWidget() : ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
• SimpleRange1() : utility::SimpleRange1
• SimpleToken() : numeric::expression_parser::SimpleToken
• simulate_mpi() : utility::SimulateMPI
• SimulateCryoMover() : SimulateCryoMover
• SimulateMPI() : utility::SimulateMPI
• SimulateMPIData() : utility::SimulateMPIData
• SimulateMPIMessage() : utility::SimulateMPIMessage
• sin_cos_tolerance() : numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• single_bunsat_thorough_check() : BuriedUnsatPolarsFinder
• single_query() : pyrosetta.protocols.structure_search.StructureSearchManager
• SingleInterface() : SingleInterface
• SingletonBase() : utility::SingletonBase< T >
• SixDCoordinateBinner() : numeric::geometry::hashing::SixDCoordinateBinner
• SixDOffsetTree() : numeric::geometry::hashing::SixDOffsetTree
• size() : basic::datacache::ConstDataMap , basic::datacache::DataCache< Data > , basic::datacache::DataMap , basic_string_view< Char > , detail::buffer< T > , detail::fill_t< Char > , detail::integer_sequence< T, N > , detail::utf8_to_utf16 , format_int , HeapContainer< T, Comparator > , InterfaceHitDatabase , Mode , numeric::ClusteringTreeNode , numeric::DietNode< T > , numeric::DiscreteIntervalEncodingTree< T > , numeric::geometry::hashing::xyzStripeHash , numeric::kdtree::KDPoint , numeric::kdtree::KDPointList , numeric::kdtree::KDTree , numeric::MathMatrix< T > , numeric::MathNTensor< T, N > , numeric::MathVector< T > , numeric::random::WeightedSampler , ObjexxFCL::CArray< T > , ObjexxFCL::CArrayP< T > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< T > , ObjexxFCL::Cstring , ObjexxFCL::FArray< T > , ObjexxFCL::FArraySection< T > , ObjexxFCL::Fstring , ObjexxFCL::IndexRange , pseudoTrace , pseudoTraceRecords , SetOfClusters , SphereSampler , ui::network::Bowman , ui::task::Node , ui::task::PNode , utility::BitSet< B > , utility::BitVector< B > , utility::fixedsizearray0< T, S > , utility::fixedsizearray1< T, S > , utility::FixedSizeLexicographicalIterator< S > , utility::graph::Array0< T > , utility::graph::ArrayPoolElement< T > , utility::graph::DirectedEdgeList , utility::graph::EdgeList , utility::graph::HideVertexVisitor< Graph > , utility::heap , utility::in_place_list< T > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyLookup< K > , utility::keys::KeyVector< K, T > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::LexicographicalIterator , utility::options::Option , utility::options::ScalarOption_T_< K, T > , utility::options::VariantOption< O > , utility::options::VectorOption_T_< K, T > , utility::OrderedTuple< T > , utility::signals::SignalHub< ReturnType, Signal > , utility::tag::Tag , VallReader
• size1() : ObjexxFCL::FArray1< T > , ObjexxFCL::FArray1A< T > , ObjexxFCL::FArray1D< T > , ObjexxFCL::FArray1P< T > , ObjexxFCL::FArray2< T > , ObjexxFCL::FArray3< T > , ObjexxFCL::FArray4< T > , ObjexxFCL::FArray5< T > , ObjexxFCL::FArray6< T > , ObjexxFCL::KeyFArray1D< T >
• size2() : ObjexxFCL::FArray2< T > , ObjexxFCL::FArray2A< T > , ObjexxFCL::FArray2D< T > , ObjexxFCL::FArray2P< T > , ObjexxFCL::FArray3< T > , ObjexxFCL::FArray4< T > , ObjexxFCL::FArray5< T > , ObjexxFCL::FArray6< T > , ObjexxFCL::KeyFArray2D< T >
• size3() : ObjexxFCL::FArray3< T > , ObjexxFCL::FArray3A< T > , ObjexxFCL::FArray3D< T > , ObjexxFCL::FArray3P< T > , ObjexxFCL::FArray4< T > , ObjexxFCL::FArray5< T > , ObjexxFCL::FArray6< T > , ObjexxFCL::KeyFArray3D< T >
• size4() : ObjexxFCL::FArray4< T > , ObjexxFCL::FArray4A< T > , ObjexxFCL::FArray4D< T > , ObjexxFCL::FArray4P< T > , ObjexxFCL::FArray5< T > , ObjexxFCL::FArray6< T > , ObjexxFCL::KeyFArray4D< T >
• size5() : ObjexxFCL::FArray5< T > , ObjexxFCL::FArray5A< T > , ObjexxFCL::FArray5D< T > , ObjexxFCL::FArray5P< T > , ObjexxFCL::FArray6< T > , ObjexxFCL::KeyFArray5D< T >
• size6() : ObjexxFCL::FArray6< T > , ObjexxFCL::FArray6A< T > , ObjexxFCL::FArray6D< T > , ObjexxFCL::FArray6P< T > , ObjexxFCL::KeyFArray6D< T >
• size_bounded() : ObjexxFCL::FArray< T >
• size_constraint_string() : utility::options::Option , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• size_dynamic() : ObjexxFCL::DynamicIndexRange
• size_msg() : utility::SimulateMPIMessage
• size_of() : ObjexxFCL::FArray1D< T > , ObjexxFCL::FArray2D< T > , ObjexxFCL::FArray3D< T > , ObjexxFCL::FArray4D< T > , ObjexxFCL::FArray4P< T > , ObjexxFCL::FArray5D< T > , ObjexxFCL::FArray5P< T > , ObjexxFCL::FArray6D< T > , ObjexxFCL::FArray6P< T > , ObjexxFCL::FArray< T > , ObjexxFCL::KeyFArray1D< T > , ObjexxFCL::KeyFArray2D< T > , ObjexxFCL::KeyFArray3D< T > , ObjexxFCL::KeyFArray4D< T > , ObjexxFCL::KeyFArray5D< T > , ObjexxFCL::KeyFArray6D< T >
• size_set() : ObjexxFCL::FArray1A< T > , ObjexxFCL::FArray1P< T > , ObjexxFCL::FArray2A< T > , ObjexxFCL::FArray2P< T > , ObjexxFCL::FArray3A< T > , ObjexxFCL::FArray3P< T > , ObjexxFCL::FArray4A< T > , ObjexxFCL::FArray4P< T > , ObjexxFCL::FArray5A< T > , ObjexxFCL::FArray5P< T > , ObjexxFCL::FArray6A< T > , ObjexxFCL::FArray6P< T > , ObjexxFCL::FArray< T >
• size_unbounded() : ObjexxFCL::FArray< T >
• sizes_msg() : utility::SimulateMPIMessage
• Skip() : ObjexxFCL::format::Skip
• skip_repack() : CenRotDockingMover
• skipping_requested() : binder::Binder
• slide_axis() : Arch
• slide_into_contact() : CenRotDockingMover
• slide_non_ideal_helix() : apps::pilot::HelixMover
• SlideTask() : SlideTask
• small_vectorL() : utility::small_vectorL< T, L, BUFFER_SIZE >
• SmallKeyMap() : utility::keys::SmallKeyMap< K, T >
• SmallKeyVector() : utility::keys::SmallKeyVector< K, T >
• SmallMoverBenchmark() : SmallMoverBenchmark
• smart_int() : kic_runner.ParseIterations
• SmartSEWINGTester() : apps::pilot::frankdt::SmartSEWINGTester
• SmoothFragRepackMover() : SmoothFragRepackMover
• so3_correlate() : numeric::fourier::SHT
• SO3coeffs() : numeric::fourier::SO3coeffs
• so3CombineCoef() : numeric::fourier::SHT
• Solve() : Solver , Solver_NU
• Solver() : Solver
• Solver_NU() : Solver_NU
• SomeThing() : SomeThing
• sort() : utility::keys::ClassKeyVector< K, T, C >
• sort_binders() : binder::Context
• sort_myself() : HeapContainer< T, Comparator >
• sorted_values() : numeric::kdtree::KDPointList
• source_id_is_mapped() : utility::subset_mapping
• source_size() : utility::subset_mapping
• space() : utility::json_spirit::Generator< Value_type, Ostream_type >
• space_prefixed() : utility::options::OptionCollection
• Spacegroup() : Spacegroup
• SpacegroupHit() : SpacegroupHit
• SpartaSuperDeviationMover() : SpartaSuperDeviationMover
• specification_received() : ui::network::Bowman , ui::network::BowmanThread
• SpecificJumpSetup() : protocols::jumping::SpecificJumpSetup
• specified_check() : utility::options::Option , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• specified_report() : utility::options::Option , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• specs() : detail::arg_formatter_base< OutputIt, Char, ErrorHandler >
• specs_checker() : detail::specs_checker< Handler >
• specs_handler() : detail::specs_handler< ParseContext, Context >
• specs_setter() : detail::specs_setter< Char >
• sph_standardize() : numeric::fourier::SHT
• SphereNode() : SphereNode
• SphereSample() : SphereSample
• SphereSampler() : SphereSampler
• sphericalVector() : numeric::sphericalVector< T >
• SplineGenerator() : numeric::interpolation::spline::SplineGenerator
• SplineParameters() : numeric::SplineParameters
• split_axis() : numeric::kdtree::KDNode
• split_citations() : basic::citation_manager::CitationManager
• split_max() : numeric::DietNode< T >
• split_min() : numeric::DietNode< T >
• split_tuple() : numeric::DietNode< T >::split_tuple
• sqr() : MatchSet , numeric::interpolation::spline::BicubicSpline , numeric::interpolation::spline::CubicSpline
• sqrt_2pi() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• square() : detail::bigint , numeric::xyzTriple< T > , numeric::xyzVector< T > , ObjexxFCL::CArray< T > , ObjexxFCL::CArrayP< T > , ObjexxFCL::ChunkVector< T > , ObjexxFCL::FArray2< T >
• square_norm() : numeric::MathVector< T >
• SquarerootExpression() : numeric::expression_parser::SquarerootExpression
• src() : utility::SimulateMPIMessage
• ss() : PoseWrap
• ss_match() : DomainDescription
• ssamp() : SlideTask
• SSM_energies() : SSM_energies
• ssstr() : ConstraintConfig
• Stage1Sampler() : protocols::abinitio::Stage1Sampler
• standard_RG() : numeric::random::standard_RG
• standard_width() : ObjexxFCL::TypeTraits< T > , ObjexxFCL::TypeTraits< double > , ObjexxFCL::TypeTraits< float > , ObjexxFCL::TypeTraits< int > , ObjexxFCL::TypeTraits< long double > , ObjexxFCL::TypeTraits< long int > , ObjexxFCL::TypeTraits< short int > , ObjexxFCL::TypeTraits< unsigned int > , ObjexxFCL::TypeTraits< unsigned long int > , ObjexxFCL::TypeTraits< unsigned short int >
• standardise_filename() : utility::Inline_File_Provider
• Star() : ObjexxFCL::Star
• Start() : GetURLHandler
• start() : numeric::MultiDimensionalHistogram , pyrosetta.distributed.cluster.logging_listeners.SocketListener , utility::json_spirit::Json_grammer< Value_type, Iter_type >::definition< ScannerT >
• start_decoy() : pyrosetta.toolbox.py_jobdistributor.PyJobDistributor
• start_doc() : basic::Emitter , basic::JsonEmitter , basic::YamlEmitter
• start_list() : basic::Emitter
• start_map() : basic::Emitter
• start_raw() : basic::Emitter , basic::JsonEmitter , basic::YamlEmitter
• start_seqpos() : SecondaryStructureChunk
• start_server() : PyMOL-Rosetta-relay-client.SecretInputDialog
• start_vertex() : RerootRestypeVisitor
• started() : ui::task::Functor
• state() : ui::task::Functor , ui::task::Task
• state_changed() : ui::task::Task
• StatefulMover() : StatefulMover
• states() : numeric::fourier::kiss_fftnd_state
• StaticIndexRange() : ObjexxFCL::StaticIndexRange
• status() : numeric::RocPoint
• status_code() : ui::task::FunctorNetworkCall , ui::task::NetworkCall
• steal_torsion_from_template() : apps::pilot::AlignChunkMover
• stem_size() : protocols::antibody::design::AntibodyDesignMoverGenerator
• step_size() : numeric::interpolation::Histogram< X, Y >
• StepWiseJobQueen() : StepWiseJobQueen
• StepwiseTorsionMover() : StepwiseTorsionMover
• steric_fusion_scan() : apps::pilot::frankdt::steric_fusion_scan
• stop() : pyrosetta.distributed.cluster.logging_listeners.SocketListener
• store() : boost::unordered_object_pool< T, UserAllocator >
• store_gdt0() : myspace::Evaluator
• str() : basic::datacache::CacheableString , CCParam , detail::utf8_to_utf16 , format_int
• stream() : basic::resource_manager::locator::FileStream , basic::resource_manager::locator::NullStream , basic::resource_manager::locator::StringResourceStream , basic::resource_manager::ResourceStream , utility::io::icstream , utility::io::irstream , utility::io::izstream , utility::io::ocstream , utility::io::orstream , utility::io::ozstream
• Stream_reader() : utility::json_spirit::Stream_reader< Istream_type, Value_type >
• Stream_reader_thrower() : utility::json_spirit::Stream_reader_thrower< Istream_type, Value_type >
• stream_setup() : utility::options::RealOption , utility::options::RealVectorOption , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• strict() : utility::Bound< T >
• Strict() : utility::Bound< T >
• strict_lower() : utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• strict_upper() : utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• string() : pyrosetta.bindings.scores.extra_scores.ExtraScoresAccessor , pyrosetta.bindings.scores.simple_metrics.SimpleMetricDataAccessor
• string_msg() : utility::SimulateMPIMessage
• string_of() : ObjexxFCL::Fstring
• Stringifier() : utility_exit_detail::Stringifier
• StringOption() : utility::options::StringOption
• StringOptionKey() : utility::options::StringOptionKey
• StringResourceStream() : basic::resource_manager::locator::StringResourceStream
• StringVectorOption() : utility::options::StringVectorOption
• StringVectorOptionKey() : utility::options::StringVectorOptionKey
• Stringy() : utility_exit_detail::Stringy
• strip() : ObjexxFCL::Fstring
• strip_whitespace() : ObjexxFCL::Fstring
• stripped() : ObjexxFCL::Fstring
• stripped_whitespace() : ObjexxFCL::Fstring , utility::keys::KeyLookup< K >
• StrongT() : utility::StrongT< T, Key >
• stupid_ddg() : HubDenovo
• subelement_behavior() : utility::tag::XMLSchemaComplexTypeGenerator , utility::tag::XMLSchemaComplexTypeGeneratorImpl
• submit() : ui::task::Task , ui::task::TaskSyncer_NodeStrategy , ui::task::TaskSyncer_TaskStrategy
• submitted() : ui::task::Task , ui::task::TaskSyncer_NodeStrategy
• subscribe() : ui::task::Task , ui::task::TaskSyncer_NodeStrategy , ui::task::TaskSyncer_TaskStrategy , ui::task::Updater
• subset_mapping() : utility::subset_mapping
• substate() : numeric::fourier::kiss_dct_state , numeric::fourier::kiss_fftr_state , numeric::fourier::kiss_fftsplit_state
• substitution_group() : utility::tag::XMLSchemaElement
• subtract_aligned() : detail::bigint
• subtract_bigits() : detail::bigint
• subtract_diagonal() : numeric::xyzMatrix< T >
• SubtractExpression() : numeric::expression_parser::SubtractExpression
• suffix() : utility::options::OptionCollection
• sulphur_bond_check() : BuriedUnsatPolarsFinder
• sum() : numeric::MathNTensor< T, N > , numeric::MathVector< T >
• sum_radius() : numeric::geometry::hashing::SixDOffsetTree
• sum_to() : Tensor
• super_mute() : basic::Tracer , basic::TracerImpl
• super_mute_() : basic::TracerImpl
• super_twiddles() : numeric::fourier::kiss_dct_state , numeric::fourier::kiss_fftr_state
• SuperDeviationMover() : SuperDeviationMover
• superimpose_antigen() : abbinding
• suppress_CSI_codes() : utility::CSI_Sequence
• suppress_CSI_seq() : utility::CSI_Sequence
• surname() : basic::citation_manager::AuthorNames
• svbksb() : basic::svd::SVD_Solver
• SVC_Q() : SVC_Q
• SVD_Solver() : basic::svd::SVD_Solver
• svdcmp() : basic::svd::SVD_Solver
• Svm_node_rosetta() : utility::libsvm::Svm_node_rosetta
• Svm_rosetta() : utility::libsvm::Svm_rosetta
• SVR_Q() : SVR_Q
• swap() : numeric::Quaternion< T > , ObjexxFCL::CArray< T > , ObjexxFCL::CArrayP< T > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< T > , ObjexxFCL::Cstring , ObjexxFCL::Dimension , ObjexxFCL::DynamicIndexRange , ObjexxFCL::FArray1D< T > , ObjexxFCL::FArray2D< T > , ObjexxFCL::FArray3D< T > , ObjexxFCL::FArray4D< T > , ObjexxFCL::FArray5D< T > , ObjexxFCL::FArray6D< T > , ObjexxFCL::IndexRange , ObjexxFCL::KeyFArray1D< T > , ObjexxFCL::KeyFArray2D< T > , ObjexxFCL::KeyFArray3D< T > , ObjexxFCL::KeyFArray4D< T > , ObjexxFCL::KeyFArray5D< T > , ObjexxFCL::KeyFArray6D< T > , ObjexxFCL::StaticIndexRange , utility::BitSet< B > , utility::BitVector< B > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyVector< K, T > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::pointer::DeepCopyOP< T > , utility::vectorL< L, T, A > , utility::vectorL< L, bool, A >
• swap1DB() : ObjexxFCL::FArray1< T >
• swap2DB() : ObjexxFCL::FArray2< T >
• swap3DB() : ObjexxFCL::FArray3< T >
• swap4DB() : ObjexxFCL::FArray4< T >
• swap5DB() : ObjexxFCL::FArray5< T >
• swap6DB() : ObjexxFCL::FArray6< T >
• swap_axis() : TCDock
• swap_axis_rotation() : TCDock
• swap_cols() : numeric::MathMatrix< T >
• swap_index() : Cache , Kernel , ONE_CLASS_Q , QMatrix , Solver , SVC_Q , SVR_Q
• swap_jobs() : ui::task::Task
• swap_no_notify() : ObjexxFCL::Dimension , ObjexxFCL::DynamicIndexRange
• swap_rows() : numeric::MathMatrix< T >
• swapB() : ObjexxFCL::FArray< T >
• SwapElementsMover1() : SwapElementsMover1
• SwapElementsMover2() : SwapElementsMover2
• switch_to_cen() : PoseWrap
• switch_to_fa() : PoseWrap
• sym_repack_minimize() : HDdesignMover
• SymFixbbMover() : SymFixbbMover
• symhash64() : numeric::xyzTransform< T >
• symmetric() : ObjexxFCL::FArray2< T >
• symmop() : Spacegroup
• symmops() : Spacegroup
• SymRBMover() : SymRBMover
• sync() : basic::basic_otstream< CharT, Traits >::basic_tstringbuf< _CharT, _Traits > , utility::io::mpi_stream::basic_mpi_streambuf< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_zip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• synced() : ui::task::Node
• syncing() : ui::task::Node , ui::task::Task
• syncing_progress() : ui::task::Task , ui::task::TaskSyncer_NodeStrategy , ui::task::TaskSyncer_TaskStrategy
• syncing_progress_advance() : ui::task::Task
• system_error() : system_error