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

- p -

• p : Solver , svm_parameter
• P0 : numeric::xyzTransform< typename >::Line
• p1 : numeric::fourier::SHT
• P1 : numeric::xyzTransform< typename >::Line
• p_ : numeric::ColsPointer< T > , numeric::geometry::hashing::xyzStripeHash::iter_base< C > , numeric::geometry::hashing::xyzStripeHashWithMeta< T >::iter_base< C > , numeric::RowsPointer< T >
• pack : pyrosetta.toolbox.generate_resfile.ResfileWriter , toolbox.generate_resfile.ResfileWriter
• pack_mover : DesignBenchmark
• pack_residue() : app.pyrosetta_toolkit.modules.protocols.DesignProtocols.DesignProtocols
• package_data : setup.PyRosettaDistribution
• packages : setup.PyRosettaDistribution
• packDesign() : app.pyrosetta_toolkit.modules.protocols.DesignProtocols.DesignProtocols
• packer_neighbor_graph_ : InteractionGraphPerformanceBenchmark
• PackingAngle() : PackingAngle
• packRes() : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• padding_width : app.pyrosetta_toolkit.modules.prettytable.prettytable.PrettyTable
• Pair : fmt::internal::ArgMap< Char >
• pair_ : utility::json_spirit::Json_grammer< Value_type, Iter_type >::definition< ScannerT >
• Pair_impl() : utility::json_spirit::Pair_impl< Config >
• pair_scorefxn_ : zinc1_homodimer_design
• Pair_type : utility::json_spirit::Config_map< String > , utility::json_spirit::Config_vector< String >
• param : svm_model
• param_main_map : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• param_name_map : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• param_pathlist_file : app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput
• param_paths : app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput , app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• param_type_map : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• param_types : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• params_directory : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• params_on : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• parent : basic::datacache::WriteableCacheableDataRegistrator< T >
• Parent : basic::MemTracer
• parent : basic::resource_manager::FallbackConfigurationRegistrator< T > , basic::resource_manager::ResourceLoaderRegistrator< T > , basic::resource_manager::ResourceLocatorRegistrator< T > , basic::resource_manager::ResourceManagerRegistrator< T > , basic::resource_manager::ResourceOptionsRegistrator< T > , numeric::ClusteringTreeNode , numeric::expression_parser::BooleanExpressionCreator , numeric::kdtree::KDNode , utility::file::PathName , utility::subset_mapping
• parent_ : basic::datacache::HierarchicalDataMap , numeric::ClusteringTreeNode , numeric::kdtree::KDNode
• parentTag_ : utility::tag::Tag
• parse() : loadPDB.Protein , loadPDB.ProteinChain , numeric::expression_parser::ArithmeticASTExpression , numeric::expression_parser::ArithmeticASTFactor , numeric::expression_parser::ArithmeticASTFunction , numeric::expression_parser::ArithmeticASTRestExpression , numeric::expression_parser::ArithmeticASTRestTerm , numeric::expression_parser::ArithmeticASTTerm , numeric::expression_parser::ArithmeticASTValue , tools.CppParser.ClangXML , tools.CppParser.GccXML
• parse_arg_index() : fmt::BasicFormatter< Char >
• parse_arg_name() : fmt::BasicFormatter< Char >
• parse_block_mapping_first_key() : yaml.parser.Parser
• parse_block_mapping_key() : yaml.parser.Parser
• parse_block_mapping_value() : yaml.parser.Parser
• parse_block_node() : yaml.parser.Parser
• parse_block_node_or_indentless_sequence() : yaml.parser.Parser
• parse_block_sequence_entry() : yaml.parser.Parser
• parse_block_sequence_first_entry() : yaml.parser.Parser
• parse_document_content() : yaml.parser.Parser
• parse_document_end() : yaml.parser.Parser
• parse_document_start() : yaml.parser.Parser
• parse_flags() : fmt::internal::PrintfFormatter< Char >
• parse_flow_mapping_empty_value() : yaml.parser.Parser
• parse_flow_mapping_first_key() : yaml.parser.Parser
• parse_flow_mapping_key() : yaml.parser.Parser
• parse_flow_mapping_value() : yaml.parser.Parser
• parse_flow_node() : yaml.parser.Parser
• parse_flow_sequence_entry() : yaml.parser.Parser
• parse_flow_sequence_entry_mapping_end() : yaml.parser.Parser
• parse_flow_sequence_entry_mapping_key() : yaml.parser.Parser
• parse_flow_sequence_entry_mapping_value() : yaml.parser.Parser
• parse_flow_sequence_first_entry() : yaml.parser.Parser
• parse_header() : fmt::internal::PrintfFormatter< Char >
• parse_implicit_document_start() : yaml.parser.Parser
• parse_indentless_sequence_entry() : yaml.parser.Parser
• parse_my_tag() : basic::database::DatabaseSessionOptions , basic::resource_manager::locator::DatabaseResourceLocator , basic::resource_manager::locator::FileListResourceLocator , basic::resource_manager::locator::FileSystemResourceLocator , basic::resource_manager::locator::NullResourceLocator , basic::resource_manager::ResourceLocator , basic::resource_manager::ResourceOptions
• parse_node() : yaml.parser.Parser
• parse_strand_ids() : ExposedStrandMover
• parse_stream_start() : yaml.parser.Parser
• parsed_protocol : src.protocols.jd2.RosettaScriptWrapper
• parser() : numeric::CalculatorParser
• parser_ : numeric::CalculatorParser
• particles_ : utility::tag::XMLSchemaModelGroup
• patch_directory : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• patch_name_map : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• patch_type_map : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• patch_types : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• patches_on : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• PatchLabel : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• path : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.Properties , arls_impl.DockingFile , BuildBindings.ModuleBuilder , utility::file::FileName , utility::file::PathName
• path_ : utility::file::FileName , utility::file::PathName
• path_options_ : basic::resource_manager::JobOptions
• path_vector_options_ : basic::resource_manager::JobOptions
• path_vectors_ : utility::options::OptionCollection
• pathbutton_ : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• pathEntry : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• pathmap_ : utility::graph::RingEdgeAnnotationVisitor< Graph, EdgeMap, PathMap >
• PathName() : utility::file::PathName , utility::options::PathOption , utility::options::PathVectorOption
• PathOption() : utility::options::PathOption
• PathOptionKey() : utility::options::PathOptionKey
• Paths : utility::options::OptionCollection
• paths_ : utility::graph::RingDetection< Graph > , utility::options::OptionCollection
• PathVectorOption() : utility::options::PathVectorOption
• PathVectorOptionKey() : utility::options::PathVectorOptionKey
• PathVectors : utility::options::OptionCollection
• PausableSignalHub() : utility::signals::PausableSignalHub< ResultType, Signal >
• pause() : utility::signals::PausableSignalHub< ResultType, Signal >
• pausing() : utility::signals::PausableSignalHub< ResultType, Signal >
• pausing_ : utility::signals::PausableSignalHub< ResultType, Signal >
• pdb : app.pyrosetta_toolkit.modules.Structure.Antibody_Structure
• pdb_alias() : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• pdb_atom_alias() : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• pdb_chain_ : HDmakerMover
• pdb_chain_alias() : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• pdb_chain_no_ : PhProtocol
• pdb_file_name_ : PhProtocol
• pdb_file_path : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• PDB_IOBenchmark() : PDB_IOBenchmark
• pdb_map : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• pdb_map_copy : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• pdb_name : app.pyrosetta_toolkit.modules.protocols.ProtocolBaseClass.ProtocolBaseClass , pyrosetta.PyJobDistributor , src.PyJobDistributor
• PDB_or_list_path : app.pyrosetta_toolkit.window_modules.clean_pdb.FixPDBWindow.FixPDBWindow
• pdb_path : app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput
• pdb_res_nos_ : PhProtocol
• pdb_residue_alias() : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• pdb_string_ : PDB_IOBenchmark , ResidueTypeBenchmark
• pdb_url : app.pyrosetta_toolkit.modules.SQLPDB.SQLPDB , app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput
• pdbID : app.pyrosetta_toolkit.modules.DesignBreakdown.SequenceInfo , app.pyrosetta_toolkit.modules.SQLPDB.SQLPDB
• PDBLIST : app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput
• pdbname_ : zinc1_homodimer_design
• pdbname_base_ : zinc1_homodimer_design , zinc2_homodimer_design
• pdbpath : app.pyrosetta_toolkit.modules.DesignBreakdown.SequenceInfo
• pdbstart : loadPDB.Protein , loadPDB.ProteinChain
• peek() : utility::io::icstream , utility::io::irstream , utility::io::izstream , yaml.reader.Reader
• peek_event() : yaml.parser.Parser
• peek_token() : yaml.scanner.Scanner
• pep_pos : pep_coord_cst
• PeptoidDesignMover() : PeptoidDesignMover
• PerformanceBenchmark() : PerformanceBenchmark
• period_certification() : numeric::random::mt19937_RG
• periodic() : numeric::interpolation::Histogram< typename, typename >
• periodic_ : numeric::interpolation::Histogram< typename, typename >
• Permute() : basic::sampling::orientations::Permute
• perturb_cycles : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• pH_neighbor_pack_ : PhProtocol
• pH_prepack_ : PhProtocol
• pH_relax_ : PhProtocol
• phi() : numeric::EulerAngles< typename > , numeric::sphericalVector< typename >
• phi_ : numeric::sphericalVector< typename >
• phi_degrees() : numeric::EulerAngles< typename >
• phi_radians() : numeric::EulerAngles< typename >
• phibin_ : ScoreFragInfo
• PhiVar : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• Photo : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame , app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow , app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager , app.pyrosetta_toolkit.window_modules.vicinity_options.vicinity_window.vicinityrelaxwindow
• PhProtocol() : PhProtocol
• pi() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pi_2() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pi_2_over_3() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pi_3_over_4() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pi_over_180() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pi_over_2() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pi_over_3() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pi_over_4() : numeric::NumericTraits< T > , numeric::NumericTraits< double > , numeric::NumericTraits< float > , numeric::NumericTraits< long double >
• pimpl_ : utility::tag::XMLSchemaComplexTypeGenerator
• pinstance_ : numeric::model_quality::RmsData
• pipe() : fmt::File
• pivot() : numeric::MathMatrix< T >
• pka_all_ : PhProtocol
• pka_rad_ : PhProtocol
• pka_value_ : PhProtocol
• plain : yaml.tokens.ScalarToken
• platform_include_path : BuildPackagedBindings.ModuleBuilder
• please_delete : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• plot_graph() : src.PyMolLink.PyMOLMover
• plot_score_vs_rmsd() : app.pyrosetta_toolkit.modules.ScoreAnalysis.ScoreAnalysis
• Point : numeric::BodyPosition< typename >
• point() : numeric::HomogeneousTransform< T >
• Point() : numeric::interpolation::spline::Point
• point() : numeric::kdtree::KDNode
• POINTER : fmt::internal::Value
• pointer : fmt::internal::Value
• Pointer : numeric::BodyPosition< typename >
• pointer : numeric::BodyPosition< typename >
• Pointer : numeric::Quaternion< typename >
• pointer : numeric::Quaternion< typename >
• Pointer : numeric::sphericalVector< typename >
• pointer : numeric::sphericalVector< typename >
• Pointer : numeric::xyzMatrix< typename >
• pointer : numeric::xyzMatrix< typename >
• Pointer : numeric::xyzTriple< typename >
• pointer : numeric::xyzTriple< typename >
• Pointer : numeric::xyzVector< typename >
• pointer : numeric::xyzVector< typename >
• Pointer : ObjexxFCL::CArray< typename >
• pointer : ObjexxFCL::CArray< typename >
• Pointer : ObjexxFCL::CArrayP< typename >
• pointer : ObjexxFCL::CArrayP< typename >
• Pointer : ObjexxFCL::Chunk< T >
• pointer : ObjexxFCL::Chunk< T >
• Pointer : ObjexxFCL::ChunkVector< typename >
• pointer : ObjexxFCL::ChunkVector< typename >
• Pointer : ObjexxFCL::FArray1< typename >
• pointer : ObjexxFCL::FArray1< typename >
• Pointer : ObjexxFCL::FArray1A< typename >
• pointer : ObjexxFCL::FArray1A< typename >
• Pointer : ObjexxFCL::FArray1D< typename >
• pointer : ObjexxFCL::FArray1D< typename >
• Pointer : ObjexxFCL::FArray1P< typename >
• pointer : ObjexxFCL::FArray1P< typename >
• Pointer : ObjexxFCL::FArray2< typename >
• pointer : ObjexxFCL::FArray2< typename >
• Pointer : ObjexxFCL::FArray2A< typename >
• pointer : ObjexxFCL::FArray2A< typename >
• Pointer : ObjexxFCL::FArray2D< typename >
• pointer : ObjexxFCL::FArray2D< typename >
• Pointer : ObjexxFCL::FArray2P< typename >
• pointer : ObjexxFCL::FArray2P< typename >
• Pointer : ObjexxFCL::FArray3< typename >
• pointer : ObjexxFCL::FArray3< typename >
• Pointer : ObjexxFCL::FArray3A< typename >
• pointer : ObjexxFCL::FArray3A< typename >
• Pointer : ObjexxFCL::FArray3D< typename >
• pointer : ObjexxFCL::FArray3D< typename >
• Pointer : ObjexxFCL::FArray3P< typename >
• pointer : ObjexxFCL::FArray3P< typename >
• Pointer : ObjexxFCL::FArray4< typename >
• pointer : ObjexxFCL::FArray4< typename >
• Pointer : ObjexxFCL::FArray4A< typename >
• pointer : ObjexxFCL::FArray4A< typename >
• Pointer : ObjexxFCL::FArray4D< typename >
• pointer : ObjexxFCL::FArray4D< typename >
• Pointer : ObjexxFCL::FArray4P< typename >
• pointer : ObjexxFCL::FArray4P< typename >
• Pointer : ObjexxFCL::FArray5< typename >
• pointer : ObjexxFCL::FArray5< typename >
• Pointer : ObjexxFCL::FArray5A< typename >
• pointer : ObjexxFCL::FArray5A< typename >
• Pointer : ObjexxFCL::FArray5D< typename >
• pointer : ObjexxFCL::FArray5D< typename >
• Pointer : ObjexxFCL::FArray5P< typename >
• pointer : ObjexxFCL::FArray5P< typename >
• Pointer : ObjexxFCL::FArray6< typename >
• pointer : ObjexxFCL::FArray6< typename >
• Pointer : ObjexxFCL::FArray6A< typename >
• pointer : ObjexxFCL::FArray6A< typename >
• Pointer : ObjexxFCL::FArray6D< typename >
• pointer : ObjexxFCL::FArray6D< typename >
• Pointer : ObjexxFCL::FArray6P< typename >
• pointer : ObjexxFCL::FArray6P< typename >
• Pointer : ObjexxFCL::FArray< typename >
• pointer : ObjexxFCL::FArray< typename >
• Pointer : ObjexxFCL::FArraySection< typename >
• pointer : ObjexxFCL::FArraySection< typename >
• Pointer : ObjexxFCL::KeyFArray1D< typename >
• pointer : ObjexxFCL::KeyFArray1D< typename >
• Pointer : ObjexxFCL::KeyFArray2D< typename >
• pointer : ObjexxFCL::KeyFArray2D< typename >
• Pointer : ObjexxFCL::KeyFArray3D< typename >
• pointer : ObjexxFCL::KeyFArray3D< typename >
• Pointer : ObjexxFCL::KeyFArray4D< typename >
• pointer : ObjexxFCL::KeyFArray4D< typename >
• Pointer : ObjexxFCL::KeyFArray5D< typename >
• pointer : ObjexxFCL::KeyFArray5D< typename >
• Pointer : ObjexxFCL::KeyFArray6D< typename >
• pointer : ObjexxFCL::KeyFArray6D< typename >
• Pointer : utility::BitSet< B >
• pointer : utility::BitSet< B >
• Pointer : utility::BitVector< B >
• pointer : utility::BitVector< B > , utility::DereferenceIterator< Container > , utility::fixedsizearray0const_iterator< T, S > , utility::fixedsizearray0iterator< T, S > , utility::fixedsizearray1const_iterator< T, S > , utility::fixedsizearray1iterator< T, S >
• Pointer : utility::keys::ClassKeyMap< K, T, C >
• pointer : utility::keys::ClassKeyMap< K, T, C >
• Pointer : utility::keys::ClassKeyVector< K, T, C >
• pointer : utility::keys::ClassKeyVector< K, T, C >
• Pointer : utility::keys::KeyMapTraits< K, T >
• pointer : utility::keys::KeyMapTraits< K, T >
• Pointer : utility::keys::KeySetTraits< K >
• pointer : utility::keys::KeySetTraits< K >
• Pointer : utility::keys::KeyVector< K, T >
• pointer : utility::keys::KeyVector< K, T >
• Pointer : utility::keys::KeyVectorTraits< K >
• pointer : utility::keys::KeyVectorTraits< K >
• Pointer : utility::keys::SmallKeyMap< K, T >
• pointer : utility::keys::SmallKeyMap< K, T >
• Pointer : utility::keys::SmallKeyVector< K, T >
• pointer : utility::keys::SmallKeyVector< K, T >
• Pointer : utility::RawType< T > , utility::RawType< T & > , utility::RawType< T * > , utility::vector0< T, A >
• pointer : utility::vector0< T, A >
• Pointer : utility::vector0< bool, A >
• pointer : utility::vector0< bool, A >
• Pointer : utility::vector1< T, A >
• pointer : utility::vector1< T, A >
• Pointer : utility::vector1< bool, A >
• pointer : utility::vector1< bool, A >
• Pointer : utility::vectorL< SSize, T, A >
• pointer : utility::vectorL< SSize, T, A >
• Pointer : utility::vectorL< L, bool, A >
• pointer : utility::vectorL< L, bool, A > , yaml.error.Mark , yaml.reader.Reader
• PointerKeyLess : utility::keys::Key
• Pointers_and_References() : Pointers_and_References
• PointPosition : numeric::geometry::BoundingBox< typename >
• points_ : numeric::interpolation::spline::SplineGenerator
• PolycubicSpline() : numeric::interpolation::spline::PolycubicSpline
• Polynomial_1d() : numeric::Polynomial_1d
• polynomial_name_ : numeric::Polynomial_1d
• polypep : loadPDB.ProteinChain
• pop() : numeric::expression_parser::TokenSet , ObjexxFCL::internal::ObserverGraph
• pop_back() : ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyVector< K, T > , utility::keys::SmallKeyVector< K, T >
• pop_next_message_for_node_of_type() : utility::SimulateMPIData
• pop_next_message_of_type() : utility::SimulateMPIData
• pop_node() : utility::tag::XMLErrorHandler
• populate_energy_term_listbox() : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• populate_restype_listbox() : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• populate_variant_listbox() : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• populateETerms() : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• populateScoreList() : app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl
• pos2frags : FragmentAssemblyMover
• pos_ : FragID
• pos_in_history_queue() : utility::recent_history_queue
• pos_of_read_buffer_end_in_py_file : boost_adaptbx::python::streambuf
• pos_of_write_buffer_end_in_py_file : boost_adaptbx::python::streambuf
• pos_type : boost_adaptbx::python::streambuf
• pose : app.pyrosetta_toolkit.modules.protocols.ProtocolBaseClass.ProtocolBaseClass , app.pyrosetta_toolkit.modules.RegionalScoring.RegionalScoring , app.pyrosetta_toolkit.pyrosetta_toolkit.main_window , app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame , app.pyrosetta_toolkit.window_main.IO.GUIInput.GUIInput , app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow , app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow , app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager , app.pyrosetta_toolkit.window_modules.scorefunction.ScoreFxnControl.ScoreFxnControl , PDB_IOBenchmark , pyrosetta.toolbox.generate_resfile.ResfileWriter , ScoreBenchmark , ShearMoverBenchmark , SmallMoverBenchmark , toolbox.generate_resfile.ResfileWriter
• pose_ : FastRelaxPerformanceBenchmark , FragInfo , InteractionGraphPerformanceBenchmark , NBuriedUnsatsCalcultor , PosePyObserver2 , PosePyObserver , ScoreEachBenchmark , sidechain_cst_3.Residue
• pose_num() : sidechain_cst_3.Residue
• PosePyObserver() : PosePyObserver
• PosePyObserver2() : PosePyObserver2
• position : yaml.reader.ReaderError
• position_ : utility::fixedsizearray0const_iterator< T, S > , utility::fixedsizearray0iterator< T, S > , utility::fixedsizearray1const_iterator< T, S > , utility::fixedsizearray1iterator< T, S >
• positive() : ObjexxFCL::DynamicIndexRange , ObjexxFCL::IndexRange
• positive_value() : ObjexxFCL::IndexRange
• posn_begin_ : utility::json_spirit::Stream_reader_thrower< Istream_type, Value_type >
• posn_end_ : utility::json_spirit::Stream_reader_thrower< Istream_type, Value_type >
• Posn_iter_t : utility::json_spirit::Stream_reader_thrower< Istream_type, Value_type >
• possible_simple_keys : yaml.scanner.Scanner
• postgres : utility::sql_database::DatabaseMode
• POWERS_OF_10_32 : fmt::internal::BasicData< T >
• POWERS_OF_10_64 : fmt::internal::BasicData< T >
• pq_schema_ : utility::sql_database::session
• precision() : fmt::AlignSpec , fmt::FormatSpec , fmt::TypeSpec< TYPE > , numeric::IOTraits< T > , numeric::IOTraits< double > , numeric::IOTraits< float > , numeric::IOTraits< int > , numeric::IOTraits< long double > , numeric::IOTraits< long int > , numeric::IOTraits< short int > , numeric::IOTraits< unsigned int > , numeric::IOTraits< unsigned long int > , numeric::IOTraits< unsigned short int > , 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 >
• precision_ : fmt::FormatSpec
• precompute_pml_ : numeric::fourier::SHT
• precompute_pml_trans_ : numeric::fourier::SHT
• precompute_wig_trans_ : numeric::fourier::SHT
• predicate_cmp_filename() : utility::predicate_cmp_filename
• predict() : utility::libsvm::Svm_rosetta
• predict_probability() : utility::libsvm::Svm_rosetta
• prefix : binder::Config , utility::options::OptionCollection , yaml.reader.Reader
• prefix_code() : binder::Binder , binder::ClassBinder
• prefix_code_ : binder::ClassBinder
• prefix_includes : binder::ClassBinder
• prepack_input_structure() : supercharge
• prepack_pose() : PhProtocol
• prepare_anchor() : yaml.emitter.Emitter
• prepare_for_output() : utility::tag::XMLSchemaAttribute , utility::tag::XMLSchemaComplexType , utility::tag::XMLSchemaElement , utility::tag::XMLSchemaModelGroup , utility::tag::XMLSchemaRestriction , utility::tag::XMLSchemaTopLevelElement
• prepare_for_query() : numeric::coordinate_fitting::CoordinateArray_RMSD_FlatLookup< Real > , numeric::coordinate_fitting::FlatLookup< QueryType, EntryType, Real >
• prepare_int_buffer() : fmt::BasicWriter< Char >
• prepare_rotamer_sets() : InteractionGraphPerformanceBenchmark
• prepare_sequence_of_subelement_sets() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• prepare_subelement_choice_opt() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• prepare_subelement_choice_req() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• prepare_subelement_repeatable() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• prepare_subelement_single_instance_optional() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• prepare_subelement_single_instance_required() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• prepare_subelement_single_instance_required_ordered() : utility::tag::XMLSchemaComplexTypeGeneratorImpl
• prepare_tag() : yaml.emitter.Emitter
• prepare_tag_handle() : yaml.emitter.Emitter
• prepare_tag_prefix() : yaml.emitter.Emitter
• prepare_version() : yaml.emitter.Emitter
• prepared_anchor : yaml.emitter.Emitter
• prepared_tag : yaml.emitter.Emitter
• prepend_channel_name() : basic::Tracer
• pretty() : numeric::expression_parser::ASTPrinter
• pretty_ : numeric::expression_parser::ASTPrinter , utility::json_spirit::Generator< Value_type, Ostream_type >
• prev : Cache::head_t , utility::list_element< T >
• prev_ : utility::list_element< T >
• prevRes() : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow , app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• primary_key_ : basic::database::schema_generator::Schema
• PrimaryKey() : basic::database::schema_generator::PrimaryKey
• print() : basic::database::schema_generator::Column , basic::database::schema_generator::Constraint , basic::database::schema_generator::DbBigInt , basic::database::schema_generator::DbDataType , basic::database::schema_generator::DbDouble , basic::database::schema_generator::DbInteger , basic::database::schema_generator::DbReal , basic::database::schema_generator::DbText , basic::database::schema_generator::DbTextKey , basic::database::schema_generator::DbUUID , basic::database::schema_generator::ForeignKey , basic::database::schema_generator::GreaterThanConstraint , basic::database::schema_generator::Index , basic::database::schema_generator::PrimaryKey , basic::database::schema_generator::Schema , basic::database::schema_generator::UniqueConstraint , basic::MetricValue< T >
• Print() : basic::sampling::orientations::Quaternion
• print() : basic::sampling::orientations::QuaternionGrid
• Print() : basic::sampling::orientations::QuatSet
• print() : fmt::BufferedFile , numeric::expression_parser::TokenSet
• print_all_hbonds() : app.pyrosetta_toolkit.window_main.frames.SimpleAnalysisFrame.SimpleAnalysisFrame
• print_channel_name : basic::TracerOptions
• print_current_options() : app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• print_energy() : app.pyrosetta_toolkit.window_main.frames.SimpleAnalysisFrame.SimpleAnalysisFrame
• print_full_energy() : app.pyrosetta_toolkit.window_main.frames.SimpleAnalysisFrame.SimpleAnalysisFrame
• print_hbonds() : app.pyrosetta_toolkit.window_main.frames.SimpleAnalysisFrame.SimpleAnalysisFrame , PhProtocol
• print_header() : utility::io::mpi_stream::basic_mpi_ostreambase< Elem, Tr, ElemA, ByteT, ByteAT > , utility::io::mpi_stream::basic_mpi_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• print_netcharge_and_mutations() : supercharge
• print_numbering() : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window
• print_option_info() : app.pyrosetta_toolkit.window_main.frames.SimpleAnalysisFrame.SimpleAnalysisFrame
• print_pose() : app.pyrosetta_toolkit.window_main.frames.SimpleAnalysisFrame.SimpleAnalysisFrame
• print_roc_curve() : numeric::RocCurve
• print_sheets() : ExposedStrandMover
• print_sheets_extras() : ExposedStrandMover
• print_to_curr_pos() : numeric::expression_parser::TokenSet
• PrintEuler() : basic::sampling::orientations::Quaternion
• PrintfArgFormatter() : fmt::internal::PrintfArgFormatter< Char >
• PrintfFormatter() : fmt::internal::PrintfFormatter< Char >
• printflags : numeric::nls::lm_control_struct
• printid : calccontacts.shellAtom , loadPDB.PDBres
• priority() : basic::Tracer
• priority_ : basic::Tracer , basic::Tracer::TracerProxy
• private : tools.CppParser.CppFunction
• private_index() : utility::keys::AutoKey< O, S, C > , utility::keys::Key , utility::keys::UserKey< O, S, C > , utility::keys::VariantKey< K >
• probA : svm_model
• probability : svm_parameter
• probB : svm_model
• problem : yaml.error.MarkedYAMLError
• problem_mark : yaml.error.MarkedYAMLError
• process_anchor() : yaml.emitter.Emitter
• process_directives() : yaml.parser.Parser
• process_empty_scalar() : yaml.parser.Parser
• process_fragfile() : DockFragmentsMover
• process_packet() : PyMOLPyRosettaServer.PR_PyMOLServer
• process_scalar() : yaml.emitter.Emitter
• process_tag() : yaml.emitter.Emitter
• processBackSpacePress() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• processDownPress() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• processed() : utility::SimulateMPIMessage
• processed_ : utility::SimulateMPIMessage
• processEnterPress() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• processKeyPress() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• processors : app.pyrosetta_toolkit.window_main.IO.GUIOutput.GUIOutput
• processors_entry : app.pyrosetta_toolkit.window_main.frames.QuickProtocolsFrame.QuickProtocolsFrame
• processors_label : app.pyrosetta_toolkit.window_main.frames.QuickProtocolsFrame.QuickProtocolsFrame
• processTabPress() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• processUpPress() : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.TkConsoleView
• product : numeric::Quaternion< typename > , numeric::xyzMatrix< typename > , numeric::xyzVector< typename >
• Product : utility::factory::Factory< typename > , utility::factory::Registrant< typename >
• ProductFactory : utility::factory::Registrant< typename >
• ProductP : utility::factory::Factory< typename >
• ProfileThis() : basic::ProfileThis
• project_normal() : numeric::xyzTriple< typename > , numeric::xyzVector< typename >
• project_parallel() : numeric::xyzTriple< typename > , numeric::xyzVector< typename >
• projected_normal() : numeric::xyzTriple< typename > , numeric::xyzVector< typename >
• projected_parallel() : numeric::xyzTriple< typename > , numeric::xyzVector< typename >
• projection_matrix : numeric::xyzMatrix< typename > , numeric::xyzVector< typename >
• prompt : app.pyrosetta_toolkit.window_modules.interactive_terminal.interactive_terminal.IterableIPShell
• prop : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• properties : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ParamsProperties , app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.PatchProperties , app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.Properties
• protected : tools.CppParser.CppFunction
• protein : arls_impl.DockingCase
• protein_or_dna : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.PatchProperties
• protocol_frame : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window
• protocol_id_ : basic::mpi::DbMoverMessageListener
• protStart : app.surface_docking.movers.FullAtomRelax
• Proxy() : ObjexxFCL::CArrayP< typename >
• proxy() : ObjexxFCL::CArrayP< typename >
• Proxy() : ObjexxFCL::CArrayP< typename >
• proxy() : ObjexxFCL::FArray< typename >
• proxy_FArray : 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 >
• ProxySentinel : ObjexxFCL::FArray1< typename > , ObjexxFCL::FArray1A< typename > , ObjexxFCL::FArray1P< typename > , ObjexxFCL::FArray2< typename > , ObjexxFCL::FArray2A< typename > , ObjexxFCL::FArray2P< typename > , ObjexxFCL::FArray3< typename > , ObjexxFCL::FArray3A< typename > , ObjexxFCL::FArray3P< typename > , ObjexxFCL::FArray4< typename > , ObjexxFCL::FArray4A< typename > , ObjexxFCL::FArray4P< typename > , ObjexxFCL::FArray5< typename > , ObjexxFCL::FArray5A< typename > , ObjexxFCL::FArray5P< typename > , ObjexxFCL::FArray6< typename > , ObjexxFCL::FArray6A< typename > , ObjexxFCL::FArray6P< typename > , ObjexxFCL::FArray< typename > , ObjexxFCL::internal::ProxySentinel
• psformat64 : numeric::random::mt19937_RG
• psi() : numeric::EulerAngles< typename >
• psi_degrees() : numeric::EulerAngles< typename >
• psi_radians() : numeric::EulerAngles< typename >
• psibin_ : ScoreFragInfo
• PsiVar : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• pt_ : numeric::kdtree::KDNode
• ptr_ : fmt::Buffer< T >
• ptr_registry() : utility::factory::Factory< typename >
• ptr_registry_transfer() : utility::factory::Factory< typename >
• PtrRegistry : utility::factory::Factory< typename >
• public : tools.CppParser.CppEnum , tools.CppParser.CppFunction , tools.CppParser.CppVariable
• pure_test_p() : test.T850_SubClassing.PyOverloadTest , utility::py::OverloadTest
• pure_test_ref() : test.T850_SubClassing.PyOverloadTest , utility::py::OverloadTest
• pure_virtual : tools.CppParser.CppFunction
• push() : ObjexxFCL::internal::ObserverGraph
• push_back() : fmt::Buffer< T > , numeric::IntervalSet< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::ChunkVector< typename > , utility::keys::ClassKeyVector< K, T, C > , utility::keys::KeyVector< K, T > , utility::keys::SmallKeyVector< K, T > , utility::options::VectorOption_T_< K, T >
• push_node() : utility::tag::XMLErrorHandler
• push_to_front_of_history_queue() : utility::recent_history_queue
• put() : utility::io::mpi_stream::basic_mpi_ostream< Elem, Tr, ElemA, ByteT, ByteAT > , utility::io::ocstream , utility::io::orstream , utility::io::ozstream , zlib_stream::basic_zip_ostream< Elem, Tr, ElemA, ByteT, ByteAT >
• put_back_from_zip_stream() : zlib_stream::basic_unzip_streambuf< Elem, Tr, ElemA, ByteT, ByteAT >
• put_long_as_uint32() : utility::io::mpi_stream::basic_mpi_ostream< Elem, Tr, ElemA, ByteT, ByteAT > , zlib_stream::basic_zip_ostream< Elem, Tr, ElemA, ByteT, ByteAT >
• putback() : utility::io::icstream , utility::io::irstream , utility::io::izstream
• pwd : app.pyrosetta_toolkit.modules.protocols.MinimizationProtocols.MinimizationProtocols , app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame , app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow , app.pyrosetta_toolkit.window_modules.options_system.OptionSystemManager.OptionSystemManager
• px() : numeric::HomogeneousTransform< T > , numeric::xyzTransform< typename >
• px_ : numeric::HomogeneousTransform< T >
• py() : numeric::HomogeneousTransform< T > , numeric::xyzTransform< typename >
• py_ : numeric::HomogeneousTransform< T >
• py_read : boost_adaptbx::python::streambuf
• py_seek : boost_adaptbx::python::streambuf
• py_src_path : BuildPackagedBindings.ModuleBuilder
• py_tell : boost_adaptbx::python::streambuf
• py_write : boost_adaptbx::python::streambuf
• pymol : src.PyMolLink.PyMOLObserver
• pymol_class : app.pyrosetta_toolkit.pyrosetta_toolkit.main_window
• pythag() : basic::svd::SVD_Solver
• python_streambuf : boost_adaptbx::python::streambuf_capsule
• PythonPDB : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• pz() : numeric::HomogeneousTransform< T > , numeric::xyzTransform< typename >
• pz_ : numeric::HomogeneousTransform< T >