- s -

• s : basic::sampling::orientations::QuaternionGrid
• s1_ : ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray6< typename >
• s2_ : ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray6< typename >
• s3_ : ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray6< typename >
• s4_ : ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray6< typename >
• s5_ : ObjexxFCL::FArray6< typename >
• s_ : utility::py::Value
• sarray_ : ObjexxFCL::FArray< typename >
• sat_allow_ : ExposedStrandMover
• sc_bb_min_mover_ : zinc1_homodimer_design
• sc_bb_move_map_ : zinc1_homodimer_design
• sc_min_mover_ : zinc1_homodimer_design
• sc_move_map_ : zinc1_homodimer_design
• scaffold : APDBCMover
• scaffold_chain : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• scaffold_cter_flex : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• scaffold_end : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• scaffold_nter_flex : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• scaffold_start : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• scalar : yaml.emitter.ScalarAnalysis
• scale_diag : numeric::nls::lm_control_struct
• scatomlist : loadPDB.PDBres
• sccentroid : loadPDB.PDBres
• score : app.pyrosetta_toolkit.modules.protocols.DesignProtocols.DesignWrapper , app.pyrosetta_toolkit.modules.RegionalScoring.RegionalScoring , app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• score_ : numeric::RocPoint
• score_class : app.pyrosetta_toolkit.modules.protocols.ProtocolBaseClass.ProtocolBaseClass , app.pyrosetta_toolkit.pyrosetta_toolkit.main_window , app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• score_function_ : Minimize , NCMinimize
• score_fxn_ : CoupledMovesProtocol
• score_high : app.surface_docking.movers.FullAtomRelax
• score_low : app.surface_docking.movers.Abinitio , app.surface_docking.movers.CentroidRelax
• score_map : app.pyrosetta_toolkit.modules.ScoreAnalysis.ScoreAnalysis
• score_object : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• score_pack : app.surface_docking.movers.FullAtomRelax
• score_pairs : app.pyrosetta_toolkit.modules.ScoreAnalysis.ScoreAnalysis
• score_rmsd_triplet : app.pyrosetta_toolkit.modules.ScoreAnalysis.ScoreAnalysis
• score_rmsd_triplet_loops : app.pyrosetta_toolkit.modules.ScoreAnalysis.ScoreAnalysis
• score_type_ : ScoreEachBenchmark
• ScoreButton : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• scoreEnumeration : app.pyrosetta_toolkit.modules.RegionalScoring.RegionalScoring
• scorefunction_ : zinc2_homodimer_setup
• scorefunction_label : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• scorefxn : app.pyrosetta_toolkit.modules.protocols.AnalysisProtocols.VIP_Wrapper , MinimizerBenchmark< sft, TScale > , pyrosetta.PyJobDistributor , src.PyJobDistributor
• scorefxn_ : ExposedStrandMover , ExtractATD , FastRelaxPerformanceBenchmark , HDdesignMover , HDmakerMover , IAMover , InteractionGraphPerformanceBenchmark , ScoreEachBenchmark , supercharge
• scorefxn_a : HDdesignMover
• scorefxn_cst_ : CaToAllAtom
• scoreName : pyrosetta.EnergyMethod , src.EnergyMethod
• ScoreOptions : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• ScoreOptionsdef : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• ScorePatch : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• ScorePatchListbox : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• ScorePatchScroll : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• scores_1b : FragmentAssemblyMover
• scores_2b : FragmentAssemblyMover
• ScoreType : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• scoreType : pyrosetta.EnergyMethod , src.EnergyMethod
• ScoreTypeListbox : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• scoretypes : app.pyrosetta_toolkit.modules.RegionalScoring.RegionalScoring
• ScoreTypeScroll : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• sd : pep_coord_cst
• seed_ : numeric::random::standard_RG
• selections : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• self : BaseWrap
• semi_constructed_expression_ : numeric::expression_parser::ExpressionCreator
• sentCount : src.PyMolLink.PySocketClient
• sep : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• seq_scroll : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window
• sequence : app.pyrosetta_toolkit.modules.DesignBreakdown.SequenceInfo , loadPDB.chainType , loadPDB.ProteinChain
• sequence_ : utility::CSI_Sequence
• sequence_context : yaml.emitter.Emitter
• sequence_output : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window
• sequences : app.pyrosetta_toolkit.modules.DesignBreakdown.DesignBreakdown
• serialized_nodes : yaml.serializer.Serializer
• set_constraints : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• setup_successful_ : ScoreEachBenchmark
• sformat : numeric::random::mt19937_RG
• sformat_idx : numeric::random::mt19937_RG
• sfxn_ : MyScoreMover , NBuriedUnsatsCalcultor
• shear_mover : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax , ShearMoverBenchmark
• shear_seq : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax
• shear_trial : app.surface_docking.movers.CentroidRelax
• shearmin_mover : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax
• shearmin_trial : app.surface_docking.movers.FullAtomRelax
• shearmin_type : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax
• sheet_start_ : HDmakerMover
• sheet_stop_ : HDmakerMover
• shift_ : ObjexxFCL::FArray< typename >
• shift_pH_ : PhProtocol
• ShoPatchLabel : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• shoRes : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• short : options_class.Option
• short_description_ : utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• ShoSeqButton : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• ShoTypeLabel : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• show_accessed_options_ : utility::options::OptionCollection
• show_all_scorefunctions : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• show_default : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• show_name : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• show_three_letter : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• show_unused_options_ : utility::options::OptionCollection
• show_variant : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• shrinking : svm_parameter
• si : Solver_NU
• side_length : test.Workshop9_my_shapes.MySquare
• sigma : basic::sampling::orientations::QuaternionGrid
• sign : SVR_Q
• simple_analysis_frame : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window
• simple_key_context : yaml.emitter.Emitter
• simulation_ : utility::SimulateMPI
• single_line_ : basic::MemTracer
• single_line_arrays_ : utility::json_spirit::Generator< Value_type, Ostream_type >
• size : Cache , fmt::internal::Value::StringValue< Char >
• size_ : basic::database::schema_generator::DbDataType , fmt::BasicStringRef< Char > , fmt::Buffer< T > , numeric::ClusteringTreeNode , numeric::kdtree::KDTree , numeric::MathMatrix< T > , numeric::MathNTensor< T > , numeric::MathTensor< T > , numeric::MathVector< T > , ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , ObjexxFCL::FArray< typename > , ObjexxFCL::FArraySection< typename > , ObjexxFCL::IndexRange , utility::graph::RingSizeVisitor< Graph, DistanceMap, LabelMap >
• skip_hd_docking_ : HDdesignMover
• skip_scoring_ : MyScoreMover
• skipping_requested_ : binder::Binder
• slide_into_contact : app.surface_docking.movers.FullAtomRelax
• slide_together_ : LigandDockBench
• slider_phi : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• slider_psi : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• slope : numeric::interpolation::spline::LinearFunction
• small_mover : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax , SmallMoverBenchmark
• small_rep : app.surface_docking.movers.CentroidRelax
• small_seq : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax
• small_trial : app.surface_docking.movers.CentroidRelax
• smallmin_mover : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax
• smallmin_trial : app.surface_docking.movers.FullAtomRelax
• smallmin_type : app.surface_docking.movers.CentroidRelax , app.surface_docking.movers.FullAtomRelax
• smooth_centroid : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• so3_ : numeric::fourier::SHT
• socket : PyMOLPyRosettaServer.PR_UDPServer , src.PyMolLink.PySocketClient
• softrep_min_mover_ : zinc1_homodimer_design
• softrep_sym_scorefxn_ : zinc1_homodimer_design
• sol_constraints : app.surface_docking.movers.FullAtomRelax
• sol_cst : app.surface_docking.movers.FullAtomRelax
• sortindex : app.pyrosetta_toolkit.modules.prettytable.prettytable.PrettyTable
• source : tools.DoxygenExtractorPyPP.doxygen_doc_extractor
• source_ : ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6P< typename >
• sources : BuildBindings.ModuleBuilder
• sources_ : ObjexxFCL::internal::ObserverGraph
• space_delim : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• spacing_ : Histogram
• spec_ : fmt::internal::BasicArgFormatter< Impl, Char >
• specific : pyrosetta.toolbox.generate_resfile.ResfileWriter , toolbox.generate_resfile.ResfileWriter
• spline_interpolator_ : numeric::interpolation::Histogram< typename, typename >
• split_axis_ : numeric::kdtree::KDNode
• sql_command_ : basic::resource_manager::locator::DatabaseResourceLocator
• src_ : utility::SimulateMPIMessage
• src_2_dst_ : utility::subset_mapping
• sstring : fmt::internal::Value
• stack_ : binder::IncludeSet , utility::json_spirit::Semantic_actions< Value_type, Iter_type >
• start : app.pyrosetta_toolkit.modules.DesignBreakdown.SequenceInfo , app.pyrosetta_toolkit.modules.Region.Region
• start_ : fmt::internal::FormatBuf< Char > , numeric::interpolation::spline::BicubicSpline , numeric::interpolation::spline::CubicSpline , numeric::interpolation::spline::PolycubicSpline , numeric::interpolation::spline::TricubicSpline , numeric::MultiDimensionalHistogram
• start_clock_ : basic::DynamicProfileThis
• start_from_ : LigandDockBench
• start_mark : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView , yaml.events.CollectionStartEvent , yaml.events.DocumentEndEvent , yaml.events.DocumentStartEvent , yaml.events.Event , yaml.events.NodeEvent , yaml.events.ScalarEvent , yaml.events.StreamStartEvent , yaml.nodes.CollectionNode , yaml.nodes.Node , yaml.nodes.ScalarNode , yaml.tokens.AliasToken , yaml.tokens.AnchorToken , yaml.tokens.DirectiveToken , yaml.tokens.ScalarToken , yaml.tokens.StreamStartToken , yaml.tokens.TagToken , yaml.tokens.Token
• start_pose : DockingBenchmark< dock, TScale > , MinimizerBenchmark< sft, TScale >
• start_res_list_ : ExposedStrandMover
• starting_centroid_pose_ : zinc1_homodimer_design
• starting_fullatom_pose_ : zinc1_homodimer_design
• starting_monomer_pose_ : zinc1_homodimer_design
• starting_pose_ : UBQ_E2Mover , UBQ_GTPase_disulfide_Mover , UBQ_GTPaseMover
• StartLoopEntry : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• StartLoopLabel : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• state : app.surface_docking.movers.FullAtomRelax , yaml.emitter.Emitter , yaml.parser.Parser
• state_ : ObjexxFCL::FArrayInitializer< typename, class > , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• state_generators : yaml.constructor.BaseConstructor
• states : yaml.emitter.Emitter , yaml.parser.Parser
• states_ : numeric::fourier::kiss_fftnd_state
• static : tools.CppParser.CppFunction
• static_int_ : utility::py::PyExitCallback
• static_string_ : utility::py::PyExitCallback
• static_string_const_ : utility::py::PyExitCallback
• status_ : numeric::RocPoint
• std_scorefxn : app.surface_docking.movers.FullAtomRelax
• steepness_ : ScoreFragmentSetMover
• step_ : numeric::interpolation::Histogram< typename, typename >
• stepbound : numeric::nls::lm_control_struct
• stochastic_pack : app.pyrosetta_toolkit.modules.protocols.DesignProtocols.DesignWrapper
• stop_level_ : utility::graph::RingSizeVisitor< Graph, DistanceMap, LabelMap >
• str_ : basic::datacache::CacheableString , fmt::FormatInt , fmt::StrFormatSpec< Char > , ObjexxFCL::Cstring , ObjexxFCL::Fstring
• strand_def_vector_ : ExposedStrandMover
• strand_pose_nums_ : ExposedStrandMover
• stream : yaml.emitter.Emitter , yaml.reader.Reader
• stream_ : basic::resource_manager::locator::FileStream , basic::resource_manager::locator::NullStream , basic::resource_manager::locator::StringResourceStream
• stream_pointer : yaml.reader.Reader
• strict_ : utility::Bound< typename >
• string : fmt::internal::Value
• string_ : utility::json_spirit::Json_grammer< Value_type, Iter_type >::definition< ScannerT >
• string_msg_ : utility::SimulateMPIMessage
• string_options_ : basic::resource_manager::JobOptions
• string_value_ : utility::py::Base
• string_vector_options_ : basic::resource_manager::JobOptions
• string_vectors_ : utility::options::OptionCollection
• strings_ : utility::options::OptionCollection
• stringvar_settings : app.pyrosetta_toolkit.window_main.IO.SessionIO.SessionIO
• struct_filename_ : ExposedStrandMover
• structID : app.pyrosetta_toolkit.modules.SQLPDB.SQLPDB
• structure_feature_ : DatabaseIOBenchmark
• style : yaml.emitter.Emitter , yaml.events.ScalarEvent , yaml.nodes.ScalarNode , yaml.tokens.ScalarToken
• sub_ : ObjexxFCL::Fstring
• subelement_behavior_ : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• subelement_sets_ : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• subelements_ : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• substate_ : numeric::fourier::kiss_dct_state , numeric::fourier::kiss_fftr_state , numeric::fourier::kiss_fftsplit_state
• substitution_group_ : utility::tag::XMLSchemaElement
• super_twiddles_ : numeric::fourier::kiss_dct_state , numeric::fourier::kiss_fftr_state
• SURFA0 : app.surface_docking.movers.FullAtomRelax
• SURFA1 : app.surface_docking.movers.FullAtomRelax
• SURFA2 : app.surface_docking.movers.FullAtomRelax
• surface_res_ : supercharge
• SV : svm_model
• sv_coef : svm_model
• sv_indices : svm_model
• svm_model_ : utility::libsvm::Svm_rosetta
• svm_type : svm_parameter
• switch : app.pyrosetta_toolkit.modules.protocols.DockingProtocols.LowResWrapper
• switch_elec_to_pair_button : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• switch_pair_to_elec_button : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• switch_to_mm_std_button : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• switch_to_orbitals_button : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• sym_minmover_ : zinc2_homodimer_design
• sym_minmover_bb_ : zinc2_homodimer_design
• sym_minmover_sc_ : zinc2_homodimer_design
• sym_pack_mover_ : zinc1_homodimer_design , zinc2_homodimer_design
• sym_rottrials_mover_ : zinc1_homodimer_design
• sym_scorefxn_ : zinc1_homodimer_design