Here is a list of all class members with links to the classes they belong to:

- c -

• c : basic::sampling::orientations::Triple
• C : binder::ClassBinder , svm_parameter
• c_root : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• c_str() : fmt::BasicCStringRef< Char > , fmt::BasicWriter< Char > , fmt::FormatInt , ObjexxFCL::Fstring
• c_str_ : ObjexxFCL::Fstring
• Cache() : Cache
• cache : ONE_CLASS_Q , SVC_Q , SVR_Q
• cache_size : svm_parameter
• CacheableString() : basic::datacache::CacheableString
• CacheableStringFloatMap() : basic::datacache::CacheableStringFloatMap
• CacheableStringMap() : basic::datacache::CacheableStringMap
• cached_value_ : utility::options::FileOption
• caclulateDihedral() : app.pyrosetta_toolkit.modules.Structure.Residue
• calc_bb_E() : HDdesignMover
• calc_centered_coordinate_rmsd() : numeric::alignment::QCP_Kernel< Real >
• calc_coordinate_rmsd() : numeric::alignment::QCP_Kernel< Real >
• calc_rmsd_Theobald_method() : numeric::alignment::QCP_Kernel< Real >
• calculate() : HPatchByChainNPDCalculator , HPatchNPDCalculator , NBuriedUnsatsCalcultor
• calculate_auc() : numeric::RocCurve
• calculate_results() : app.pyrosetta_toolkit.modules.DesignBreakdown.DesignBreakdown
• calculate_rho() : Solver , Solver_NU
• calculate_tracer_level() : basic::Tracer
• calculate_tracer_visibilities() : basic::Tracer
• calculate_visibility() : basic::Tracer , basic::Tracer::TracerProxy
• Calculator() : numeric::Calculator
• calculator_name() : HPatchByChainNPDCalculatorCreator , HPatchNPDCalculatorCreator , NBuriedUnsatsCalcultorCreator
• CalculatorParser() : numeric::CalculatorParser
• caliburPath : app.pyrosetta_toolkit.modules.calibur.calibur
• call() : BuildBindings.SubCall
• can_hold_another() : utility::options::Option , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• can_wrap() : tools.CppParser.CppVariable
• can_wrap_type() : tools.CppParser.CppVariable
• canonical : yaml.emitter.Emitter
• Canonicalize() : basic::sampling::orientations::Quaternion
• capacity() : fmt::Buffer< T > , numeric::random::WeightedReservoirSampler< T > , ObjexxFCL::Chunk< T > , utility::heap , 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 >
• capacity_ : fmt::Buffer< T > , numeric::random::WeightedReservoirSampler< T > , ObjexxFCL::Chunk< T >
• CArray() : ObjexxFCL::CArray< typename >
• CArrayP : ObjexxFCL::CArrayP< typename >
• cas_ : CAtrace
• cast() : fmt::internal::BasicCharTraits< Char >
• CategorizedConstObjectMap : basic::datacache::ConstDataMap
• category_ : utility::tag::XMLSchemaElement
• CaToAllAtom() : CaToAllAtom
• CAtrace() : CAtrace
• cc_files : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• cd_hbond_terms : app.pyrosetta_toolkit.modules.RegionalScoring.RegionalScoring
• CDR : app.pyrosetta_toolkit.modules.Structure.Antibody_Structure
• cdrDic : app.pyrosetta_toolkit.modules.tools.interfaces.Antibodies
• CDRS : app.pyrosetta_toolkit.modules.Structure.Antibody_Structure
• center : numeric::interpolation::Histogram< typename, typename > , numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::Cstring , ObjexxFCL::Fstring
• center_ : FragInfo
• centered() : ObjexxFCL::Cstring , ObjexxFCL::Fstring
• Centroid : app.pyrosetta_toolkit.window_modules.protocol_builder.ProtocolBuilder.MainProtocols
• centroid : loadPDB.PDBres
• centroid_ : ScoreEachBenchmark , zinc1_homodimer_design
• centroid_scorefxn_for_ddG_calc_ : zinc1_homodimer_design
• cfg_nd() : numeric::fourier::kiss_fftndr_state
• cfg_nd_ : numeric::fourier::kiss_fftndr_state
• cfg_r() : numeric::fourier::kiss_fftndr_state
• cfg_r_ : numeric::fourier::kiss_fftndr_state
• chain : app.pyrosetta_toolkit.modules.DesignBreakdown.SequenceInfo , app.pyrosetta_toolkit.modules.Region.Region , app.pyrosetta_toolkit.modules.Structure.CDR , app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow , loadPDB.new_PDBatom , loadPDB.PDBatom , loadPDB.PDBres , loadPDB.ProteinChain
• chain_ : sidechain_cst_3.Residue
• chain_char_ : ExposedStrandMover
• chain_column : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• chain_entry : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• chain_label : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• ChainIDEntry : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• ChainIDLabel : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• chainLabel : loadPDB.chainType
• chainList : loadPDB.chainType , loadPDB.Protein
• chains : loadPDB.Protein
• chains_ : HPatchByChainNPDCalculator
• chainTypeList : loadPDB.Protein
• change_occupancies_var : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• change_occupancy() : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• change_patch_button : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• change_scorefunction_button : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• changeLine() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• changeWeight() : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• channel() : basic::Tracer
• channel_ : basic::Tracer , basic::Tracer::TracerProxy
• channel_color() : basic::Tracer
• channel_color_ : basic::Tracer
• channel_id_ : utility::io::mpi_stream::basic_mpi_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• channel_name_color() : basic::Tracer
• channel_name_color_ : basic::Tracer
• chaOcc : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• CHAR : fmt::internal::Value
• Char : fmt::SystemError
• char_allocator_type : utility::io::mpi_stream::basic_mpi_streambuf< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_unzip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_zip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• char_buffer_p_ : utility::io::ozstream
• CHAR_CONST_P : utility::options::FileOption
• char_msg() : utility::SimulateMPIMessage
• char_msg_ : utility::SimulateMPIMessage
• char_of() : ObjexxFCL::Fstring
• char_type : boost_adaptbx::python::streambuf , utility::io::mpi_stream::basic_mpi_ostream< Elem, Tr, ElemA, ByteT, ByteAT > , utility::io::mpi_stream::basic_mpi_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• Char_type : utility::json_spirit::Generator< Value_type, Ostream_type > , utility::json_spirit::Multi_pass_iters< Istream_type > , utility::json_spirit::Semantic_actions< Value_type, Iter_type >
• char_type : zlib_stream::basic_unzip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_zip_istream< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_zip_ostream< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_zip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• char_vector_type : utility::io::mpi_stream::basic_mpi_streambuf< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_unzip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_zip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• character : yaml.reader.ReaderError
• CharPtr : fmt::BasicWriter< Char > , fmt::internal::BasicCharTraits< Char >
• check_array_scalar() : array_scalar_converter< T >
• check_block_entry() : yaml.scanner.Scanner
• check_button_auto_write : app.pyrosetta_toolkit.window_main.frames.OutputFrame.OutputFrame
• check_button_Cen : app.pyrosetta_toolkit.window_modules.protocol_builder.ProtocolBuilder.MainProtocols
• check_button_overwrite : app.pyrosetta_toolkit.window_main.frames.OutputFrame.OutputFrame
• check_button_Shear : app.pyrosetta_toolkit.window_modules.protocol_builder.ProtocolBuilder.MainProtocols
• check_c_root : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• check_constraints : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• check_crc() : utility::io::izstream , zlib_stream::basic_zip_istream< Elem, Tr, ElemA, ByteT, ByteAT >
• check_data() : yaml.constructor.BaseConstructor
• check_data_size() : zlib_stream::basic_zip_istream< Elem, Tr, ElemA, ByteT, ByteAT >
• check_directive() : yaml.scanner.Scanner
• check_document_end() : yaml.scanner.Scanner
• check_document_start() : yaml.scanner.Scanner
• check_empty_document() : yaml.emitter.Emitter
• check_empty_mapping() : yaml.emitter.Emitter
• check_empty_sequence() : yaml.emitter.Emitter
• check_event() : yaml.parser.Parser
• check_for_residue_existance() : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• check_for_rosetta_off_aa() : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• check_for_unrecognized_aa() : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• check_header() : zlib_stream::basic_zip_istream< Elem, Tr, ElemA, ByteT, ByteAT >
• check_if_on_by_default() : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.Properties
• check_if_rosetta_resnum_is_part_of_region() : app.pyrosetta_toolkit.modules.DesignBreakdown.DesignBreakdown
• check_invariants() : numeric::Polynomial_1d
• check_key() : utility::options::OptionCollection , yaml.scanner.Scanner
• check_linear : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• check_no_auto_index() : fmt::internal::FormatterBase
• check_node() : yaml.composer.Composer
• check_plain() : yaml.scanner.Scanner
• check_printable() : yaml.reader.Reader
• check_region_can_be_added() : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• check_repack : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• check_residue_callback() : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• check_resolver_prefix() : yaml.resolver.BaseResolver
• check_restricted_access() : utility::options::Option
• check_rmsd_ : ExposedStrandMover
• check_rosetta_var : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• check_simple_key() : yaml.emitter.Emitter
• check_specs() : utility::options::OptionCollection
• check_table_and_perform_write() : basic::database::schema_generator::Schema
• check_token() : yaml.scanner.Scanner
• check_type() : utility::json_spirit::Value_impl< Config >
• check_unrecognized_button : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• check_value() : yaml.scanner.Scanner
• check_values() : utility::options::OptionCollection
• check_zero_dim_array() : array_scalar_converter< T >
• checkbutonn_repack_con_and_insert : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• checkbutton_randomize : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• checkbutton_repack_con : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• checkbutton_smooth : app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• chi_mm : app.surface_docking.movers.FullAtomRelax
• child() : numeric::expression_parser::ArithmeticASTFactor
• child_ : numeric::expression_parser::ArithmeticASTFactor
• children_ : numeric::expression_parser::ArithmeticASTExpression , numeric::expression_parser::ArithmeticASTFunction , numeric::expression_parser::ArithmeticASTRestExpression , numeric::expression_parser::ArithmeticASTRestTerm , numeric::expression_parser::ArithmeticASTTerm
• children_begin() : numeric::expression_parser::ArithmeticASTExpression , numeric::expression_parser::ArithmeticASTFunction , numeric::expression_parser::ArithmeticASTRestExpression , numeric::expression_parser::ArithmeticASTRestTerm , numeric::expression_parser::ArithmeticASTTerm
• children_end() : numeric::expression_parser::ArithmeticASTExpression , numeric::expression_parser::ArithmeticASTFunction , numeric::expression_parser::ArithmeticASTRestExpression , numeric::expression_parser::ArithmeticASTRestTerm , numeric::expression_parser::ArithmeticASTTerm
• choose_load_pose() : app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput
• choose_scalar_style() : yaml.emitter.Emitter
• choose_set_output_dir() : app.pyrosetta_toolkit.window_main.frames.OutputFrame.OutputFrame
• Chunk : ObjexxFCL::Chunk< T >
• chunk : utility::sql_database::TransactionMode
• chunk_exponent() : ObjexxFCL::ChunkVector< typename >
• chunk_exponent_ : ObjexxFCL::ChunkVector< typename >
• chunk_mask_ : ObjexxFCL::ChunkVector< typename >
• chunk_size() : ObjexxFCL::ChunkVector< typename >
• chunk_size_ : ObjexxFCL::ChunkVector< typename > , utility::sql_database::session
• Chunk_type : ObjexxFCL::ChunkVector< typename >
• ChunkExponent() : ObjexxFCL::ChunkExponent
• Chunks : ObjexxFCL::ChunkVector< typename >
• chunks_ : ObjexxFCL::ChunkVector< typename >
• Chunks_size_type : ObjexxFCL::ChunkVector< typename >
• ChunksSize : ObjexxFCL::ChunkVector< typename >
• ChunkType : ObjexxFCL::ChunkVector< typename >
• ChunkVector : ObjexxFCL::ChunkVector< typename >
• cl_value() : utility::options::Option , utility::options::ResidueChainVectorOption , utility::options::ScalarOption , utility::options::ScalarOption_T_< K, T > , utility::options::VariantOption< O > , utility::options::VectorOption , utility::options::VectorOption_T_< K, T >
• clash() : numeric::geometry::hashing::xyzStripeHash
• clash2b : FragmentAssemblyMover
• clash_amount() : numeric::geometry::hashing::xyzStripeHash
• clash_check_ball() : numeric::geometry::hashing::xyzStripeHash
• clash_check_residue_pairs() : numeric::geometry::hashing::xyzStripeHash
• clash_dist_ : ScoreFragmentSetMover
• clash_not_resid() : numeric::geometry::hashing::xyzStripeHash
• clash_raw() : numeric::geometry::hashing::xyzStripeHash
• clash_score() : ScoreFragmentSetMover
• clash_wt_ : FragmentAssemblyMover
• Class_ : binder::vector_binder< T, Allocator > , rosetta_binders::utility_vector_binder< Vector, L, T, Allocator >
• ClassBinder() : binder::ClassBinder
• classes_to_bind : binder::Config
• classes_to_skip : binder::Config
• ClassKeyMap() : utility::keys::ClassKeyMap< K, T, C >
• ClassKeyVector() : utility::keys::ClassKeyVector< K, T, C >
• ClassVisitor() : ClassVisitor
• clean_line() : tools.dox_extract.dox_extract
• clean_PDB() : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• clean_pdb : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• cleaned() : utility::options::OptionCollection
• cleaned_pdb_path : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• clear() : app.pyrosetta_toolkit.modules.prettytable.prettytable.PrettyTable , basic::datacache::DataCache< Data > , basic::resource_manager::LazyResourceManager , basic::resource_manager::ResourceManager
• Clear() : basic::sampling::orientations::QuatSet
• clear() : binder::IncludeSet , fmt::BasicWriter< Char > , fmt::Buffer< T > , Histogram , numeric::IntervalSet< typename > , numeric::random::WeightedSampler , numeric::sphericalVector< typename > , numeric::xyzMatrix< typename > , numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , ObjexxFCL::Dimension , ObjexxFCL::DynamicIndexRange , ObjexxFCL::FArray1< typename > , ObjexxFCL::FArray1A< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray2A< typename > , ObjexxFCL::FArray2D< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray3A< typename > , ObjexxFCL::FArray3D< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray4A< typename > , ObjexxFCL::FArray4D< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray5A< typename > , ObjexxFCL::FArray5D< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6< typename > , ObjexxFCL::FArray6A< typename > , ObjexxFCL::FArray6D< typename > , ObjexxFCL::FArray6P< typename > , ObjexxFCL::FArray< typename > , ObjexxFCL::FArrayInitializer< typename, class > , ObjexxFCL::Fstring , ObjexxFCL::IndexRange , ObjexxFCL::KeyFArray1D< typename > , ObjexxFCL::KeyFArray2D< typename > , ObjexxFCL::KeyFArray3D< typename > , ObjexxFCL::KeyFArray4D< typename > , ObjexxFCL::KeyFArray5D< typename > , ObjexxFCL::KeyFArray6D< typename > , ObjexxFCL::StaticIndexRange , utility::Bound< typename > , utility::file::FileName , utility::file::PathName , utility::in_place_list< T > , utility::io::FileContentsMap , utility::io::icstream , utility::io::irstream , utility::io::izstream , utility::io::ocstream , utility::io::orstream , utility::io::ozstream , 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::options::Option , utility::options::ScalarOption , utility::options::ScalarOption_T_< K, T > , utility::options::VariantOption< O > , utility::options::VectorOption , utility::options::VectorOption_T_< K, T > , utility::recent_history_queue , utility::signals::SignalHub< ResultType, Signal > , utility::tag::Tag
• clear_buffer() : utility::signals::BufferedSignalHub< ResultType, Signal >
• clear_defaults() : app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• clear_input_files() : utility::Inline_File_Provider
• clear_no_notify() : ObjexxFCL::Dimension , ObjexxFCL::DynamicIndexRange
• clear_num_string_on_new_input() : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window
• clear_processed_msgs() : utility::SimulateMPIData
• clear_rms() : numeric::model_quality::RmsData
• clear_rows() : app.pyrosetta_toolkit.modules.prettytable.prettytable.PrettyTable
• clear_str() : tools.DoxygenExtractorPyPP.doxygen_doc_extractor
• clear_tokens() : utility::signals::TokenHub< ResultType, Signal >
• clearCurrentResidue() : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• clearResData() : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• click_restype_callback() : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• Client : utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C >
• client_type : utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C >
• cloak_and_setup() : HDdesignMover
• clone() : basic::datacache::CacheableData , basic::datacache::CacheableString , basic::datacache::CacheableStringFloatMap , basic::datacache::CacheableStringMap , basic::datacache::DiagnosticData , basic::datacache::WriteableCacheableMap , basic::MetricValue< T > , basic::MetricValueBase , CoupledMovesProtocol , ExemplarMover , ExposedStrandMover , HDdesignMover , HDmakerMover , LigandDockBench , Minimize , MyScoreMover , NCMinimize
• Clone() : numeric::interpolation::spline::BicubicSpline
• clone() : numeric::interpolation::spline::CubicSpline
• Clone() : numeric::interpolation::spline::PolycubicSpline , numeric::interpolation::spline::TricubicSpline , numeric::MathMatrix< T >
• clone() : numeric::MathVector< T > , ObjexxFCL::Dimension , ObjexxFCL::DimensionExpression , ObjexxFCL::DimensionExpressionCon , ObjexxFCL::DimensionExpressionCube , ObjexxFCL::DimensionExpressionDiv , ObjexxFCL::DimensionExpressionMax , ObjexxFCL::DimensionExpressionMin , ObjexxFCL::DimensionExpressionMul , ObjexxFCL::DimensionExpressionPow , ObjexxFCL::DimensionExpressionRef , ObjexxFCL::DimensionExpressionSquare , ObjexxFCL::DimensionExpressionSub , ObjexxFCL::DimensionExpressionSum , test.T850_SubClassing.MyNewCI1B
• Clone() : utility::graph::RingDetection< Graph >
• clone() : utility::keys::AutoKey< O, S, C > , utility::keys::Key , utility::keys::UserKey< O, S, C > , utility::options::AnyOption< T > , utility::options::AnyOptionKey , utility::options::AnyVectorOption< T > , utility::options::AnyVectorOptionKey , utility::options::BooleanOption , utility::options::BooleanOptionKey , utility::options::BooleanVectorOption , utility::options::BooleanVectorOptionKey , utility::options::FileOption , utility::options::FileOptionKey , utility::options::FileVectorOption , utility::options::FileVectorOptionKey , utility::options::IntegerOption , utility::options::IntegerOptionKey , utility::options::IntegerVectorOption , utility::options::IntegerVectorOptionKey , utility::options::Option , utility::options::OptionKey , utility::options::PathOption , utility::options::PathOptionKey , utility::options::PathVectorOption , utility::options::PathVectorOptionKey , utility::options::RealOption , utility::options::RealOptionKey , utility::options::RealVectorOption , utility::options::RealVectorOptionKey , utility::options::ResidueChainVectorOption , utility::options::ResidueChainVectorOptionKey , utility::options::ScalarOption , utility::options::ScalarOption_T_< K, T > , utility::options::ScalarOptionKey , utility::options::StringOption , utility::options::StringOptionKey , utility::options::StringVectorOption , utility::options::StringVectorOptionKey , utility::options::VectorOption , utility::options::VectorOption_T_< K, T > , utility::options::VectorOptionKey , utility::tag::Tag
• closability_score() : ScoreFragmentSetMover
• close() : fmt::BufferedFile , fmt::File , options.KeepSameFile , utility::io::izstream , utility::io::mpi_stream::basic_mpi_ostream< Elem, Tr, ElemA, ByteT, ByteAT > , utility::io::ozstream , yaml.serializer.Serializer
• close2b : FragmentAssemblyMover
• close_wt_ : FragmentAssemblyMover
• closed : yaml.serializer.Serializer
• closest_match() : numeric::coordinate_fitting::FlatLookup< QueryType, EntryType, Real >
• closest_match_subset() : numeric::coordinate_fitting::FlatLookup< QueryType, EntryType, Real >
• cluster() : numeric::AgglomerativeHierarchicalClusterer
• cluster_frags() : DockFragmentsMover
• ClusteringTreeNode() : numeric::ClusteringTreeNode
• ClusterOptions() : numeric::ClusterOptions
• cm_ : ResidueTypeBenchmark
• Cn : Solver
• code() : binder::Binder , utility::keys::AutoKey< O, S, C > , utility::keys::Key , utility::keys::UserKey< O, S, C > , utility::keys::VariantKey< K > , utility::options::Option , utility::options::ScalarOption_T_< K, T > , utility::options::VariantOption< O > , utility::options::VectorOption_T_< K, T >
• code_ : binder::Binder , utility::keys::AutoKey< O, S, C > , utility::keys::UserKey< O, S, C >
• coef : numeric::kinematic_closure::p
• coef0 : Kernel , svm_parameter
• coefficients() : numeric::Polynomial_1d
• coefficients_ : numeric::Polynomial_1d
• coefLoc() : numeric::fourier::SO3coeffs
• cofactors : arls_impl.DockingCase
• coheap_ : utility::heap
• col : app.pyrosetta_toolkit.modules.prettytable.prettytable_test.BuildEquivelanceTest , numeric::xyzMatrix< typename >
• col_x() : numeric::xyzMatrix< typename >
• col_y() : numeric::xyzMatrix< typename >
• col_z() : numeric::xyzMatrix< typename >
• collapse() : numeric::MultiDimensionalHistogram
• color : test.Workshop9_my_shapes.MyShape
• color_pat : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• color_region() : app.pyrosetta_toolkit.window_modules.pymol_integration.PyMOL.AdvancedPyMOL
• color_region_from_entry() : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• color_region_from_listbox() : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• color_regions() : app.pyrosetta_toolkit.window_modules.pymol_integration.PyMOL.AdvancedPyMOL
• color_residue() : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame , app.pyrosetta_toolkit.window_modules.pymol_integration.PyMOL.AdvancedPyMOL
• ColPointers() : numeric::ColPointers< T >
• cols() : numeric::xyzMatrix< typename >
• cols_constructor() : numeric::xyzMatrix< typename >
• ColsAtCompileTime : numeric::linear_algebra::GeneralizedEigenSolver< _MatrixType >
• ColsPointer() : numeric::ColsPointer< T >
• Column() : basic::database::schema_generator::Column
• column : yaml.emitter.Emitter , yaml.error.Mark , yaml.reader.Reader , yaml.scanner.Scanner , yaml.scanner.SimpleKey
• column_ : utility::json_spirit::Error_position
• column_index_map_ : basic::database::insert_statement_generator::InsertGenerator
• column_list_ : basic::database::insert_statement_generator::InsertGenerator
• column_name_ : basic::database::insert_statement_generator::RowDataBase
• column_separator_ : basic::resource_manager::locator::DatabaseResourceLocator
• columns() : basic::database::schema_generator::ForeignKey , basic::database::schema_generator::Index , basic::database::schema_generator::PrimaryKey
• columns_ : basic::database::schema_generator::Constraint , basic::database::schema_generator::ForeignKey , basic::database::schema_generator::Index , basic::database::schema_generator::PrimaryKey , basic::database::schema_generator::Schema
• ColVectors() : numeric::ColVectors< T >
• CombinePaths() : utility::graph::RingDetection< Graph >
• comma_delim : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• commit_transaction() : utility::sql_database::session
• common_option : app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• common_option_disable() : app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• common_options : app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• common_scorefunctions : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• common_type() : utility::tag::XMLSchemaType
• common_type_ : utility::tag::XMLSchemaType
• comparable : ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::ChunkVector< typename > , utility::keys::AutoKey< O, S, C > , utility::keys::Key , utility::keys::UserKey< O, S, C >
• comparator() : numeric::AgglomerativeHierarchicalClusterer , numeric::AverageLinkClusterer , numeric::CompleteLinkClusterer , numeric::SingleLinkClusterer
• compare() : fmt::BasicStringRef< Char > , sidechain_cst_3.Residue
• CompareKDPoints() : numeric::kdtree::CompareKDPoints
• ComparingTracer() : basic::ComparingTracer
• compileBindings() : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• complete() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.IterableIPShell
• complete_sep : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.IterableIPShell
• complex_type_ : utility::tag::XMLSchemaElement
• complex_type_naming_func() : utility::tag::XMLSchemaComplexTypeGenerator , utility::tag::XMLSchemaComplexTypeGeneratorImpl , utility::tag::XMLSchemaSimpleSubelementList
• complex_type_naming_function_ : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• complex_typename_for_element() : utility::tag::XMLSchemaSimpleSubelementList
• ComplexScalar : numeric::linear_algebra::GeneralizedEigenSolver< _MatrixType >
• compose_document() : yaml.composer.Composer
• compose_mapping_node() : yaml.composer.Composer
• compose_node() : yaml.composer.Composer
• compose_scalar_node() : yaml.composer.Composer
• compose_sequence_node() : yaml.composer.Composer
• compress() : ObjexxFCL::Cstring , ObjexxFCL::Fstring
• compressed() : ObjexxFCL::Cstring , ObjexxFCL::Fstring , utility::io::icstream , utility::io::irstream , utility::io::izstream , utility::io::ocstream , utility::io::orstream , utility::io::ozstream
• Compression : utility::io::izstream , utility::io::ozstream
• compression_ : utility::io::izstream , utility::io::ozstream
• compute() : numeric::Calculator , numeric::linear_algebra::GeneralizedEigenSolver< _MatrixType >
• compute_in_place() : numeric::linear_algebra::GeneralizedEigenSolver< _MatrixType >
• compute_lb_function_solution() : numeric::interpolation::spline::Interpolator
• compute_ligand_score_bonus() : CoupledMovesProtocol
• compute_ub_function_solution() : numeric::interpolation::spline::Interpolator
• computed_last_chunk_size() : ObjexxFCL::ChunkVector< typename >
• computed_n_chunk() : ObjexxFCL::ChunkVector< typename >
• condition() : numeric::expression_parser::ITEExpression
• condition_ : numeric::expression_parser::ITEExpression
• Config() : binder::Config
• Config_type : utility::json_spirit::Generator< Value_type, Ostream_type > , utility::json_spirit::Semantic_actions< Value_type, Iter_type > , utility::json_spirit::Value_impl< Config >
• conjugate() : numeric::Quaternion< typename >
• conjugated() : numeric::Quaternion< typename >
• connect() : utility::signals::SignalHub< ResultType, Signal >
• connect_tokenize() : utility::signals::TokenHub< ResultType, Signal >
• connected_vertices_ : utility::graph::HideVertexVisitor< Graph >
• consider_sample() : numeric::random::WeightedReservoirSampler< T >
• const : tools.CppParser.CppFunction
• const_iterator : basic::datacache::ConstDataMap , basic::datacache::DataMap , numeric::geometry::hashing::xyzStripeHash::const_iterator , numeric::kdtree::KDPointList , ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::SetWrapper< typename > , utility::BitSet< B > , utility::BitVector< B > , utility::DereferenceIterator< Container > , utility::fixedsizearray0< T, S > , utility::fixedsizearray1< T, S > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyLookup< K > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::lookup::begin< K > , utility::keys::lookup::end< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::options::VectorOption_T_< K, T > , utility::OrderedTuple< T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• const_location() : numeric::kdtree::KDPoint
• const_overloaded : tools.CppParser.CppFunction
• const_pointer : numeric::BodyPosition< typename > , numeric::Quaternion< typename > , numeric::sphericalVector< typename > , numeric::xyzMatrix< typename > , numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , ObjexxFCL::FArray1< typename > , ObjexxFCL::FArray1A< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray2A< typename > , ObjexxFCL::FArray2D< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray3A< typename > , ObjexxFCL::FArray3D< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray4A< typename > , ObjexxFCL::FArray4D< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray5A< typename > , ObjexxFCL::FArray5D< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6< typename > , ObjexxFCL::FArray6A< typename > , ObjexxFCL::FArray6D< typename > , ObjexxFCL::FArray6P< typename > , ObjexxFCL::FArray< typename > , ObjexxFCL::FArraySection< typename > , ObjexxFCL::KeyFArray1D< typename > , ObjexxFCL::KeyFArray2D< typename > , ObjexxFCL::KeyFArray3D< typename > , ObjexxFCL::KeyFArray4D< typename > , ObjexxFCL::KeyFArray5D< typename > , ObjexxFCL::KeyFArray6D< typename > , utility::BitSet< B > , utility::BitVector< B > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• const_reference : numeric::BodyPosition< typename > , numeric::Quaternion< typename > , numeric::sphericalVector< typename > , numeric::xyzMatrix< typename > , numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , ObjexxFCL::FArray1< typename > , ObjexxFCL::FArray1A< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray2A< typename > , ObjexxFCL::FArray2D< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray3A< typename > , ObjexxFCL::FArray3D< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray4A< typename > , ObjexxFCL::FArray4D< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray5A< typename > , ObjexxFCL::FArray5D< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6< typename > , ObjexxFCL::FArray6A< typename > , ObjexxFCL::FArray6D< typename > , ObjexxFCL::FArray6P< typename > , ObjexxFCL::FArray< typename > , ObjexxFCL::FArraySection< typename > , ObjexxFCL::KeyFArray1D< typename > , ObjexxFCL::KeyFArray2D< typename > , ObjexxFCL::KeyFArray3D< typename > , ObjexxFCL::KeyFArray4D< typename > , ObjexxFCL::KeyFArray5D< typename > , ObjexxFCL::KeyFArray6D< typename > , utility::BitSet< B > , utility::BitVector< B > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyLookup< K > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• const_reverse_iterator : utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• Const_str_ptr : utility::json_spirit::Value_impl< Config >
• constant() : ObjexxFCL::Dimension , ObjexxFCL::DimensionExpression , ObjexxFCL::DimensionExpressionCon , ObjexxFCL::DimensionExpressionCube , ObjexxFCL::DimensionExpressionDiv , ObjexxFCL::DimensionExpressionMax , ObjexxFCL::DimensionExpressionMin , ObjexxFCL::DimensionExpressionMul , ObjexxFCL::DimensionExpressionPow , ObjexxFCL::DimensionExpressionRef , ObjexxFCL::DimensionExpressionSquare , ObjexxFCL::DimensionExpressionSub , ObjexxFCL::DimensionExpressionSum
• ConstDataMap() : basic::datacache::ConstDataMap
• ConstIterator : ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::ChunkVector< typename > , ObjexxFCL::SetWrapper< typename > , utility::BitSet< B > , utility::BitVector< B > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyLookup< K > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::lookup::begin< K > , utility::keys::lookup::end< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::options::VectorOption_T_< K, T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• ConstPointer : numeric::BodyPosition< typename > , numeric::Quaternion< typename > , numeric::sphericalVector< typename > , numeric::xyzMatrix< typename > , numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , ObjexxFCL::FArray1< typename > , ObjexxFCL::FArray1A< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray2A< typename > , ObjexxFCL::FArray2D< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray3A< typename > , ObjexxFCL::FArray3D< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray4A< typename > , ObjexxFCL::FArray4D< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray5A< typename > , ObjexxFCL::FArray5D< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6< typename > , ObjexxFCL::FArray6A< typename > , ObjexxFCL::FArray6D< typename > , ObjexxFCL::FArray6P< typename > , ObjexxFCL::FArray< typename > , ObjexxFCL::FArraySection< typename > , ObjexxFCL::KeyFArray1D< typename > , ObjexxFCL::KeyFArray2D< typename > , ObjexxFCL::KeyFArray3D< typename > , ObjexxFCL::KeyFArray4D< typename > , ObjexxFCL::KeyFArray5D< typename > , ObjexxFCL::KeyFArray6D< typename > , utility::BitSet< B > , utility::BitVector< B > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• Constraint() : basic::database::schema_generator::Constraint
• constraint_file_paths : app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput
• constraints : app.surface_docking.movers.FullAtomRelax
• constraints_ : basic::database::schema_generator::Schema
• ConstReference : numeric::BodyPosition< typename > , numeric::Quaternion< typename > , numeric::sphericalVector< typename > , numeric::xyzMatrix< typename > , numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , ObjexxFCL::FArray1< typename > , ObjexxFCL::FArray1A< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray2A< typename > , ObjexxFCL::FArray2D< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray3A< typename > , ObjexxFCL::FArray3D< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray4A< typename > , ObjexxFCL::FArray4D< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray5A< typename > , ObjexxFCL::FArray5D< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6< typename > , ObjexxFCL::FArray6A< typename > , ObjexxFCL::FArray6D< typename > , ObjexxFCL::FArray6P< typename > , ObjexxFCL::FArray< typename > , ObjexxFCL::FArraySection< typename > , ObjexxFCL::KeyFArray1D< typename > , ObjexxFCL::KeyFArray2D< typename > , ObjexxFCL::KeyFArray3D< typename > , ObjexxFCL::KeyFArray4D< typename > , ObjexxFCL::KeyFArray5D< typename > , ObjexxFCL::KeyFArray6D< typename > , utility::BitSet< B > , utility::BitVector< B > , utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyLookup< K > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• ConstReverseIterator : utility::keys::ClassKeyMap< K, T, C > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyMapTraits< K, T > , utility::keys::KeySetTraits< K > , utility::keys::KeyVector< K, T > , utility::keys::KeyVectorTraits< K > , utility::keys::SmallKeyMap< K, T > , utility::keys::SmallKeyVector< K, T > , utility::vector0< T, A > , utility::vector0< bool, A > , utility::vector1< T, A > , utility::vector1< bool, A > , utility::vectorL< SSize, T, A > , utility::vectorL< L, bool, A >
• construct_document() : yaml.constructor.BaseConstructor
• construct_mapping() : yaml.constructor.BaseConstructor , yaml.constructor.SafeConstructor
• construct_object() : yaml.constructor.BaseConstructor
• construct_pairs() : yaml.constructor.BaseConstructor
• construct_python_complex() : yaml.constructor.Constructor
• construct_python_long() : yaml.constructor.Constructor
• construct_python_module() : yaml.constructor.Constructor
• construct_python_name() : yaml.constructor.Constructor
• construct_python_object() : yaml.constructor.Constructor
• construct_python_object_apply() : yaml.constructor.Constructor
• construct_python_object_new() : yaml.constructor.Constructor
• construct_python_str() : yaml.constructor.Constructor
• construct_python_tuple() : yaml.constructor.Constructor
• construct_python_unicode() : yaml.constructor.Constructor
• construct_scalar() : yaml.constructor.BaseConstructor , yaml.constructor.SafeConstructor
• construct_sequence() : yaml.constructor.BaseConstructor
• construct_undefined() : yaml.constructor.SafeConstructor
• construct_yaml_binary() : yaml.constructor.SafeConstructor
• construct_yaml_bool() : yaml.constructor.SafeConstructor
• construct_yaml_float() : yaml.constructor.SafeConstructor
• construct_yaml_int() : yaml.constructor.SafeConstructor
• construct_yaml_map() : yaml.constructor.SafeConstructor
• construct_yaml_null() : yaml.constructor.SafeConstructor
• construct_yaml_object() : yaml.constructor.SafeConstructor
• construct_yaml_omap() : yaml.constructor.SafeConstructor
• construct_yaml_pairs() : yaml.constructor.SafeConstructor
• construct_yaml_seq() : yaml.constructor.SafeConstructor
• construct_yaml_set() : yaml.constructor.SafeConstructor
• construct_yaml_str() : yaml.constructor.SafeConstructor
• construct_yaml_timestamp() : yaml.constructor.SafeConstructor
• constructed_objects : yaml.constructor.BaseConstructor
• constructor : tools.CppParser.CppFunction
• constructors : tools.CppParser.CppClass
• contactMap : calccontacts.contactProtein
• contactPDB : calccontacts.contactProtein
• contain() : ObjexxFCL::DynamicIndexRange , ObjexxFCL::IndexRange , ObjexxFCL::StaticIndexRange
• contain_nic() : ObjexxFCL::DynamicIndexRange
• Container : ObjexxFCL::SetWrapper< typename >
• container : utility::OrderedTuple< T >
• container_ : numeric::kdtree::KDPointList , ObjexxFCL::SetWrapper< typename >
• contains() : numeric::geometry::BoundingBox< typename > , numeric::geometry::hashing::SixDCoordinateBinner , ObjexxFCL::DynamicIndexRange , ObjexxFCL::FArray1< typename > , ObjexxFCL::FArray1A< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray2A< typename > , ObjexxFCL::FArray2D< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray3A< typename > , ObjexxFCL::FArray3D< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray4A< typename > , ObjexxFCL::FArray4D< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray5A< typename > , ObjexxFCL::FArray5D< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6< typename > , ObjexxFCL::FArray6A< typename > , ObjexxFCL::FArray6D< typename > , ObjexxFCL::FArray6P< typename > , ObjexxFCL::IndexRange , ObjexxFCL::KeyFArray1D< typename > , ObjexxFCL::KeyFArray2D< typename > , ObjexxFCL::KeyFArray3D< typename > , ObjexxFCL::KeyFArray4D< typename > , ObjexxFCL::KeyFArray5D< typename > , ObjexxFCL::KeyFArray6D< typename > , utility::vectorL< SSize, T, A >
• contains_composite_elements() : utility::json_spirit::Generator< Value_type, Ostream_type >
• contains_end_block_dox_comment : tools.dox_extract.dox_extract
• contains_start_block_dox_comment : tools.dox_extract.dox_extract
• contains_three_slash_dox_comment : tools.dox_extract.dox_extract
• context : BinderVisitor , tools.CppParser.CppClass , tools.CppParser.CppEnum , tools.CppParser.CppFunction , tools.CppParser.CppNamespace , tools.CppParser.CppType_Typedef , tools.CppParser.CppVariable , yaml.error.MarkedYAMLError
• context_mark : yaml.error.MarkedYAMLError
• Contexts : tools.CppParser.ClangXML , tools.CppParser.GccXML , tools.CppParser.ReferenceSection
• continue_at_dimension() : utility::FixedSizeLexicographicalIterator< S > , utility::LexicographicalIterator
• contract() : numeric::geometry::BoundingBox< typename >
• control : app.pyrosetta_toolkit.window_modules.vicinity_options.vicinity_window.vicinityrelaxwindow
• convert() : fmt::internal::CharTraits< char > , fmt::internal::CharTraits< wchar_t > , utility::py::COP_to_Python_converter< T >
• convert_array_scalar() : array_scalar_converter< T >
• convert_to_shell() : calccontacts.contactProtein
• convert_zero_dim_array() : array_scalar_converter< T >
• CoordinateArray_RMSD_FlatLookup() : numeric::coordinate_fitting::CoordinateArray_RMSD_FlatLookup< Real >
• coordinates_per_entry : numeric::coordinate_fitting::CoordinateArray_RMSD_FlatLookup< Real >
• coordlist : loadPDB.PDBres
• coords : loadPDB.new_PDBatom , loadPDB.PDBatom
• copy() : app.pyrosetta_toolkit.modules.prettytable.prettytable.PrettyTable , calccontacts.resContact , loadPDB.PDBres , loadPDB.Protein , loadPDB.ProteinChain , ObjexxFCL::Fstring
• copy_from() : utility::options::Option , utility::options::ResidueChainVectorOption , utility::options::ScalarOption_T_< K, T > , utility::options::VectorOption_T_< K, T >
• copy_leaf_ids() : numeric::ClusteringTreeNode
• copy_member_ids() : numeric::ClusteringTreeNode
• copy_results() : app.pyrosetta_toolkit.modules.ScoreAnalysis.ScoreAnalysis
• copy_results2() : app.pyrosetta_toolkit.modules.ScoreAnalysis.ScoreAnalysis
• cos_of : numeric::xyzTriple< typename > , numeric::xyzVector< typename >
• could_not_create_resource_error_message() : basic::resource_manager::fallback_configuration::NativeFallbackConfiguration , basic::resource_manager::FallbackConfiguration
• count : calccontacts.shellAtom , numeric::geometry::hashing::Counter , numeric::model_quality::RmsData
• count_ : numeric::model_quality::RmsData , utility::keys::KeyCount
• Counter() : numeric::geometry::hashing::Counter
• counts() : numeric::MultiDimensionalHistogram
• counts_ : numeric::MultiDimensionalHistogram
• CoupledMovesProtocol() : CoupledMovesProtocol
• cout : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.IPythonView
• coval() : utility::heap
• cover : basic::sampling::orientations::QuatDBMetadata
• coverage : basic::sampling::orientations::QuaternionGrid
• Cp : Solver
• cpp_defines : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• create() : utility::factory::Factory< typename >
• Create : utility::factory::Factory< typename > , utility::factory::Registrant< typename >
• create() : utility::tag::Tag
• create_all_nested_namespaces() : binder::Context
• create_data() : basic::datacache::WriteableCacheableDataCreator
• create_energy_method() : test.T850_SubClassing.MyNewCI1B_Creator
• create_expression_tree() : numeric::expression_parser::ExpressionCreator
• create_fallback_configuration() : basic::resource_manager::fallback_configuration::NativeFallbackConfigurationCreator , basic::resource_manager::FallbackConfigurationCreator , basic::resource_manager::FallbackConfigurationFactory
• create_GUI_objects() : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame , app.pyrosetta_toolkit.window_main.frames.OutputFrame.OutputFrame , app.pyrosetta_toolkit.window_main.frames.QuickProtocolsFrame.QuickProtocolsFrame , app.pyrosetta_toolkit.window_main.frames.SimpleAnalysisFrame.SimpleAnalysisFrame
• create_options() : basic::database::DatabaseSessionOptionsCreator , basic::resource_manager::ResourceOptionsCreator
• create_resource() : basic::database::DatabaseSessionLoader , basic::resource_manager::LazyResourceManager , basic::resource_manager::ResourceLoader
• create_resource_by_job_tag() : basic::resource_manager::LazyResourceManager
• create_resource_loader() : basic::database::DatabaseSessionLoaderCreator , basic::resource_manager::ResourceLoaderCreator , basic::resource_manager::ResourceLoaderFactory
• create_resource_locator() : basic::resource_manager::locator::DatabaseResourceLocatorCreator , basic::resource_manager::locator::FileListResourceLocatorCreator , basic::resource_manager::locator::FileSystemResourceLocatorCreator , basic::resource_manager::locator::NullResourceLocatorCreator , basic::resource_manager::ResourceLocatorCreator , basic::resource_manager::ResourceLocatorFactory
• create_resource_manager() : basic::resource_manager::ResourceManagerCreator
• create_resource_manager_from_options_system() : basic::resource_manager::ResourceManagerFactory
• create_resource_options() : basic::resource_manager::ResourceOptionsFactory
• create_resources() : basic::resource_manager::LazyResourceManager
• create_singleton_instance() : basic::datacache::WriteableCacheableDataFactory , basic::mpi::MessageListenerFactory , basic::resource_manager::FallbackConfigurationFactory , basic::resource_manager::ResourceLoaderFactory , basic::resource_manager::ResourceLocatorFactory , basic::resource_manager::ResourceManagerFactory , basic::resource_manager::ResourceOptionsFactory , basic::sampling::orientations::QuaternionGridManager , utility::Inline_File_Provider
• create_subelement() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• CreateASTConsumer() : BinderFrontendAction
• createAtoms() : app.pyrosetta_toolkit.modules.Structure.Residue
• createBonds() : app.pyrosetta_toolkit.modules.Structure.Residue
• creator_map_ : basic::resource_manager::ResourceLoaderFactory , basic::resource_manager::ResourceLocatorFactory , basic::resource_manager::ResourceOptionsFactory
• CreatorMap : utility::factory::WidgetFactory< Creator >
• CreatorOP : utility::factory::WidgetFactory< Creator >
• CREATOROP : utility::factory::WidgetRegistrator< FACTORY, CREATOR >
• creators() : utility::factory::WidgetFactory< Creator >
• creators_ : utility::factory::WidgetFactory< Creator >
• creators_map_ : basic::resource_manager::FallbackConfigurationFactory , basic::resource_manager::ResourceManagerFactory
• cross : numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::KeyFArray1D< typename >
• cross_product() : numeric::xyzTriple< typename > , numeric::xyzVector< typename > , ObjexxFCL::FArray1D< typename > , ObjexxFCL::KeyFArray1D< typename >
• CSI_Sequence() : utility::CSI_Sequence
• CSTRING : fmt::internal::Value
• Cstring() : ObjexxFCL::Cstring
• cstyle_A_decomp_ : basic::svd::SVD_Solver
• cstyle_b_ : basic::svd::SVD_Solver
• cstyle_tmp_ : basic::svd::SVD_Solver
• cstyle_v_ : basic::svd::SVD_Solver
• cstyle_w_ : basic::svd::SVD_Solver
• cstyle_x_ : basic::svd::SVD_Solver
• ct_group : utility::tag::XMLSchemaSimpleSubelementList::ElementSummary
• ct_name : utility::tag::XMLSchemaSimpleSubelementList::ElementSummary
• ct_naming_func_for_simple_subelements_ : utility::tag::XMLSchemaSimpleSubelementList
• ct_ref : utility::tag::XMLSchemaSimpleSubelementList::ElementSummary
• ct_simple : utility::tag::XMLSchemaSimpleSubelementList::ElementSummary
• Cter : app.pyrosetta_toolkit.modules.Structure.CDR
• ctype : options_class.Option
• CubicSpline() : numeric::interpolation::spline::CubicSpline
• cumulative_distribution_ : numeric::random::WeightedSampler
• cumulative_distribution_valid_ : numeric::random::WeightedSampler
• cur : app.pyrosetta_toolkit.modules.SQLPDB.PDB_database
• cur_transaction_ : utility::sql_database::session
• curr_cycle : app.surface_docking.movers.FullAtomRelax
• curr_num_in_recent_history() : utility::recent_history_queue
• curr_num_in_recent_history_ : utility::recent_history_queue
• curr_pos_ : numeric::expression_parser::TokenSet , utility::FixedSizeLexicographicalIterator< S > , utility::LexicographicalIterator
• curr_pose_ : PhProtocol
• current : app.pyrosetta_toolkit.modules.Region.Regions
• current_accessible_sa : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_callback_object() : utility::py::PyExitCallback
• current_chain : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_chainFull : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_default : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• current_directory : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window , app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• current_event : yaml.parser.Parser
• current_links() : utility::signals::SignalHub< ResultType, Signal >
• current_main_selection : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• current_name : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager , pyrosetta.PyJobDistributor , src.PyJobDistributor
• current_name_selection : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• current_num : pyrosetta.PyJobDistributor , src.PyJobDistributor
• current_p_ : utility::json_spirit::Semantic_actions< Value_type, Iter_type >
• current_relative_mutability : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_residue : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_residue_name : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_residue_name_full : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_residueFull : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_surface_probability : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• current_three_letter : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• current_type_selection : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• current_variant : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• currently_sending_ : utility::signals::SignalHub< ResultType, Signal >
• CUSTOM : fmt::internal::Value
• custom : fmt::internal::Value
• custom_option : app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• custom_type_name() : utility::tag::XMLSchemaType
• custom_type_name_ : utility::tag::XMLSchemaType
• cut_from_map() : DockFragmentsMover
• cutoff : numeric::interpolation::spline::LinearFunction
• Cyan : basic::Tracer
• cycles : app.pyrosetta_toolkit.modules.protocols.AnalysisProtocols.VIP_Wrapper , app.pyrosetta_toolkit.modules.protocols.GraftingProtocols.GraftMoverWindow
• CYS_C : UBQ_E2Mover
• CYS_CA : UBQ_E2Mover
• CYS_CB : UBQ_E2Mover
• CYS_SG : UBQ_E2Mover