- p -
- pack_rotamers_mover()
: HemeBindingMover
- pack_sidechains()
: MinPackMin
- package()
: utility::Version
- Packing_energies()
: Packing_energies
- PackingAngle()
: PackingAngle
- paintEvent()
: MainWindow
- paintGL()
: MainWindow
, ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
- Pair_impl()
: utility::json_spirit::Pair_impl< Config >
- pair_query()
: pyrosetta.protocols.structure_search.StructureSearchManager
- PairDistance()
: PairDistance
- PairScore()
: PairScore
- parameter_to_str()
: pyrosetta.tests.distributed.cluster.test_smoke.GeneratorTest
- params_file()
: ui::ui_protocols::helical_bundle::HelicalBundleDialogueWidget
- parent()
: numeric::ClusteringTreeNode
, numeric::kdtree::KDNode
, SphereNode
, ui::network::BowmanModel
, ui::task::Node
, ui::task::ProjectModel
, ui::util::TreeNodeModel< T >
, utility::file::PathName
- parse()
: detail::fallback_formatter< T, Char, enable_if_t< is_streamable< T, Char >::value > >
, dynamic_formatter< Char >
, formatter< bytes >
, formatter< detail::bigint >
, formatter< std::chrono::duration< Rep, Period >, Char >
, formatter< std::tm, Char >
, formatter< T, Char, enable_if_t< detail::type_constant< T, Char >::value !=detail::type::custom_type > >
, formatter< T, Char, enable_if_t< fmt::is_range< T, Char >::value &&(has_formatter< detail::value_type< T >, format_context >::value||detail::has_fallback_formatter< detail::value_type< T >, format_context >::value) > >
, formatter< tuple_arg_join< Char, T... >, Char >
, formatter< TupleT, Char, enable_if_t< fmt::is_tuple_like< TupleT >::value > >
, formatting_base< Char >
, numeric::expression_parser::ArithmeticASTAndClause
, numeric::expression_parser::ArithmeticASTExpression
, numeric::expression_parser::ArithmeticASTFactor
, numeric::expression_parser::ArithmeticASTFunction
, numeric::expression_parser::ArithmeticASTOrClause
, numeric::expression_parser::ArithmeticASTRestAndClause
, numeric::expression_parser::ArithmeticASTRestExpression
, numeric::expression_parser::ArithmeticASTRestOrClause
, numeric::expression_parser::ArithmeticASTRestTerm
, numeric::expression_parser::ArithmeticASTTerm
, numeric::expression_parser::ArithmeticASTValue
, printf_formatter< T >
- parse_authors()
: basic::citation_manager::Citation
- parse_config_file()
: ConstraintConfig
- parse_context()
: basic_printf_context< OutputIt, Char >
- parse_flags()
: basic_printf_context< OutputIt, Char >
- parse_header()
: basic_printf_context< OutputIt, Char >
- parse_job_definition_tags()
: FixbbJobQueen
- parse_my_tag()
: basic::resource_manager::locator::DatabaseResourceLocator
, basic::resource_manager::locator::FileListResourceLocator
, basic::resource_manager::locator::FileSystemResourceLocator
, basic::resource_manager::locator::NullResourceLocator
, basic::resource_manager::ResourceLocator
, ChiMover
, LigChiMover
, protocols::antibody::AntibodyInfoRMOptions
- parse_options()
: HECTMover
- parse_residues()
: ConstraintConfig
- parse_sequence()
: ConstraintConfig
- parse_sfxns_and_taskops()
: FixbbJobQueen
- parse_strand_ids()
: ExposedStrandMover
- parse_string_entry()
: basic::citation_manager::Citation
- parse_year()
: basic::citation_manager::Citation
- parsed_protocol()
: pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask
- parseFileSize()
: utility::io::TarParser
- parser()
: numeric::CalculatorParser
, pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask
- partners_from_info()
: abbinding
- parts()
: detail::compiled_format_base< S, typename >
, detail::compiled_format_base< S, enable_if_t< is_compile_string< S >::value > >
- path()
: utility::file::FileName
, utility::file::PathName
- PathArgument()
: ui::network::PathArgument
- PathFinder()
: PathFinder
- PathName()
: utility::file::PathName
- PathologicalKinematicPerturber()
: PathologicalKinematicPerturber
- PathOption()
: utility::options::PathOption
- PathOptionKey()
: utility::options::PathOptionKey
- PathVectorOption()
: utility::options::PathVectorOption
- PathVectorOptionKey()
: utility::options::PathVectorOptionKey
- PausableSignalHub()
: utility::signals::PausableSignalHub< ReturnType, Signal >
- pause()
: ui::network::Bowman
, utility::signals::PausableSignalHub< ReturnType, Signal >
- pausing()
: utility::signals::PausableSignalHub< ReturnType, Signal >
- PcaEvaluator()
: protocols::abinitio::PcaEvaluator
- pdb_from_level()
: SphereSample
- PDB_IOBenchmark()
: PDB_IOBenchmark
- pdbline()
: pdbline
- pdbname()
: Spacegroup
- peek()
: utility::io::icstream
, utility::io::irstream
, utility::io::izstream
- PepMinMover()
: PepMinMover
- PeptiodMovieMover()
: PeptiodMovieMover
- PeptoidDesignMover()
: PeptoidDesignMover
- PeptoidDihedralGrabber()
: PeptoidDihedralGrabber
- PeptoidRotamerRecoverer()
: PeptoidRotamerRecoverer
- per_residue_probabilities()
: pyrosetta.bindings.scores.simple_metrics.SimpleMetricDataAccessor
- per_residue_real()
: pyrosetta.bindings.scores.simple_metrics.SimpleMetricDataAccessor
- per_residue_string()
: pyrosetta.bindings.scores.simple_metrics.SimpleMetricDataAccessor
- PerformanceBenchmark()
: PerformanceBenchmark
- period_certification()
: numeric::random::mt19937_RG
- periodic()
: numeric::interpolation::Histogram< X, Y >
- periodic_range()
: JDmover
- Permute()
: basic::sampling::orientations::Permute
- perspectiveGL()
: MainWindow
- perturb_chain()
: NullKinematicPerturber
, PathologicalKinematicPerturber
, UniformPerturber
- perturber_type()
: NullKinematicPerturber
, PathologicalKinematicPerturber
, UniformPerturber
- Perturbers1()
: Perturbers1
- Perturbers2()
: Perturbers2
- PerturbStruct()
: PerturbStruct
- PhDocking()
: PhDocking
- phi()
: Mode
, numeric::EulerAngles< T >
, numeric::sphericalVector< T >
- phi_degrees()
: numeric::EulerAngles< T >
- phi_radians()
: numeric::EulerAngles< T >
- 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 >
- pick_consensus_AA()
: protocols::jd2::RECONMPIJobDistributor
- pick_fragments()
: SwapElementsMover1
, SwapElementsMover2
- pick_frags()
: ThisApplication
- pick_hashing_res()
: myspace::Scheduler
- pick_random_chunk()
: apps::pilot::MultiTemplateAlignChunkMover
- pick_random_template()
: apps::pilot::MultiTemplateAlignChunkMover
, ChallengeMover
- pick_sequence()
: ConstraintConfig
- pick_sse()
: PickSSE
- PickBAB()
: PickBAB
- PickSSE()
: PickSSE
- pivot()
: numeric::MathMatrix< T >
- place_c()
: BruteFunGroupTK
, FunGroupTK
, KinFunGroupTK
- place_n()
: BruteFunGroupTK
, BruteRotSel
, FunGroupTK
, KinFunGroupTK
, KinRotSel
, RotSel
- PNode()
: ui::task::PNode
- POD2()
: POD2
- POD3()
: POD3
- POD4()
: POD4
- POD5()
: POD5
- POD6()
: POD6
- point()
: numeric::HomogeneousTransform< T >
- Point()
: numeric::interpolation::spline::Point
- point()
: numeric::kdtree::KDNode
- point_clicked()
: ui::viewers::ScoreFileView
- Pointers_and_References()
: Pointers_and_References
- pointGroupHit()
: pointGroupHit
- poll()
: job_manager.CommandRunner
- poll_frequency()
: ServerInfo
- PolycubicSpline()
: numeric::interpolation::spline::PolycubicSpline< N >
, numeric::interpolation::spline::PolycubicSpline< 1 >
, numeric::interpolation::spline::PolycubicSpline< 2 >
- PolycubicSplineBase()
: numeric::interpolation::spline::PolycubicSplineBase
- Polynomial_1d()
: numeric::Polynomial_1d
- pop()
: InterfaceHitDatabase
, job_manager.StatusWindow
, numeric::expression_parser::TokenSet
, ObjexxFCL::internal::ObserverGraph
, utility::graph::NegSpaceElement< T >
, utility::vectorL< L, T, A >
- pop_back()
: ObjexxFCL::Chunk< T >
, ObjexxFCL::ChunkVector< T >
, utility::keys::ClassKeyVector< K, T, C >
, utility::keys::KeyVector< K, T >
, utility::keys::SmallKeyVector< K, T >
- pop_masked_key()
: pyrosetta.distributed.cluster.logging_handlers.MsgpackHmacSocketHandler
, pyrosetta.distributed.cluster.logging_handlers.MultiSocketHandler
- pop_next_message_for_node_of_type()
: utility::SimulateMPIData
- pop_next_message_of_type()
: utility::SimulateMPIData
- pop_node()
: utility::tag::XMLErrorHandler
- pop_status()
: job_manager.AppWindow
- populate_doi_rosetta_citation_map()
: basic::citation_manager::CitationManager
- pos_in_history_queue()
: utility::recent_history_queue
- pose()
: pyrosetta.distributed.packed_pose.core.PackedPose
, SlideTask
, ui::ui_core::pose_draw::SimplePoseDrawOpenGLWidget
- pose_from_job()
: InterfaceDDGBindJobInputter
- pose_name()
: HBondReporter
- pose_num()
: sidechain_cst_3.Residue
- pose_to_xyz()
: SimulateCryoMover
- PoseEditor()
: ui::widgets::PoseEditor
- PosePyObserver()
: PosePyObserver
- poses()
: pyrosetta.io.silent_file_map.SilentFileMap
- PoseWrap()
: PoseWrap
- positive()
: ObjexxFCL::DynamicIndexRange
, ObjexxFCL::IndexRange
- positive_value()
: ObjexxFCL::IndexRange
- post_submit()
: ui::task::TaskSyncer_NodeStrategy
- PostMessage_from_main_thread()
: nacl_rosetta::RosettaInstance
- PostStringToBrowser()
: nacl_rosetta::RosettaInstance
- precision()
: basic::Tracer
, 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_adapter()
: detail::precision_adapter< SpecHandler, Char >
- precision_checker()
: detail::precision_checker< ErrorHandler >
- precompute_intra()
: TCDock
- predicate_cmp_filename()
: utility::predicate_cmp_filename
- predict()
: utility::libsvm::Svm_rosetta
- predict_probability()
: utility::libsvm::Svm_rosetta
- predicted_distance()
: DistancePrediction
- prefix()
: utility::options::OptionCollection
- prefix_code()
: binder::Binder
, binder::ClassBinder
- prefix_for_static_member_functions()
: binder::Config
- prepack_pose()
: PhProtocol
- 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_rotamer_sets()
: InteractionGraphPerformanceBenchmark
- prepare_scoring_function()
: DockGlycansProtocol
- 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
- prepend_Aform_residue()
: dsRNA_grow
- prepend_channel_name()
: basic::TracerImpl
- prepend_to_msg()
: utility::excn::Exception
- pretty()
: numeric::expression_parser::ASTPrinter
- pretty_print()
: CalcsTestMover
- prev()
: utility::list_element< T >
- preview_file()
: ui::task::TaskView
- previous()
: utility::graph::DirectedEdgeListElement
, utility::graph::EdgeListElement
- primary_authors()
: basic::citation_manager::Citation
- 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()
: buffered_file
, enumerate_junctions.Design
, enumerate_junctions.DHR
, enumerate_junctions.Junction
, numeric::expression_parser::TokenSet
, PairScore
, SequenceCoords
, utility::graph::DirectedNode
, utility::graph::LowMemNode
, utility::graph::Node
- print_aa_statistics()
: MPInterfaceStatistics
- print_energy()
: PepMinMover
- print_error_message()
: utility::options::Option
- print_features()
: Features
, JDmover
- print_flips()
: ElecDensMinPackMinReporter
- print_hbonds()
: PhDocking
, 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_roc_curve()
: numeric::RocCurve
- print_score()
: MPDomainAssembly
- print_seqs()
: PrintSequenceMover
- print_sequences()
: DesignGlycansProtocol
- print_sheets()
: ExposedStrandMover
- print_sheets_extras()
: ExposedStrandMover
- print_stats()
: ConstraintStatsMover
, SpartaSuperDeviationMover
, SuperDeviationMover
- print_to_curr_pos()
: numeric::expression_parser::TokenSet
- print_unprocessed_incoming_messages()
: utility::SimulateMPI
- print_unprocessed_outgoing_messages()
: utility::SimulateMPI
- print_vertices()
: utility::graph::Digraph
, utility::graph::Graph
, utility::graph::LowMemGraph< _LMNode, _LMEdge >
- PrintEuler()
: basic::sampling::orientations::Quaternion
- printf_arg_formatter()
: printf_arg_formatter< OutputIt, Char >
- printf_formatter()
: printf_formatter< T >
- printf_width_handler()
: detail::printf_width_handler< Char >
- PrintFeatures()
: PrintFeatures
- printHeader()
: PairScore
- PrintPDDF()
: PrintPDDF
- PrintSequenceMover()
: PrintSequenceMover
- priority()
: basic::TracerImpl
- private_index()
: utility::keys::AutoKey< O, S, C >
, utility::keys::Key
, utility::keys::UserKey< O, S, C >
, utility::keys::VariantKey< K >
- probability()
: DisulfideBondEnergy
- process_decoy()
: protocols::abinitio::JumpSpecificAbrelax
- process_fragfile()
: DockFragmentsMover
- process_packet()
: PyMOL-Rosetta-relay-client.PR_PyMOLServer
, PyMOL-RosettaServer.PR_PyMOLServer
, pyrosetta.PyMOLRosettaServer.PR_PyMOLServer
- processed()
: utility::SimulateMPIMessage
- ProfileThis()
: basic::ProfileThis
- progress()
: ui::task::Functor
, ui::task::FunctorASyncSequence
, ui::task::FunctorSequence
- progress_data_received()
: ui::network::Bowman
, ui::network::BowmanThread
, ui::widgets::PoseEditor
- Project()
: ui::task::Project
- project()
: ui::task::ProjectModel
, ui::task::Task
- project_along_axis()
: CrystFFTDock
- project_normal()
: numeric::xyzTriple< T >
, numeric::xyzVector< T >
- project_parallel()
: numeric::xyzTriple< T >
, numeric::xyzVector< T >
- projected_normal()
: numeric::xyzTriple< T >
, numeric::xyzVector< T >
- projected_parallel()
: numeric::xyzTriple< T >
, numeric::xyzVector< T >
- ProjectModel()
: ui::task::ProjectModel
- ProjectView()
: ui::task::ProjectView
- protein()
: schema.Job
- Protocol_MolecularDynamics()
: Protocol_MolecularDynamics
- provide_xml_schema()
: basic::resource_manager::locator::DatabaseResourceLocator
, basic::resource_manager::locator::DatabaseResourceLocatorCreator
, basic::resource_manager::locator::FileListResourceLocator
, basic::resource_manager::locator::FileListResourceLocatorCreator
, basic::resource_manager::locator::FileSystemResourceLocator
, basic::resource_manager::locator::FileSystemResourceLocatorCreator
, basic::resource_manager::locator::NullResourceLocator
, basic::resource_manager::locator::NullResourceLocatorCreator
, basic::resource_manager::ResourceLoaderCreator
, basic::resource_manager::ResourceLocatorCreator
- Proxy()
: ObjexxFCL::CArrayP< T >
- proxy()
: ObjexxFCL::CArrayP< T >
, ObjexxFCL::FArray< T >
- ProxySentinel()
: ObjexxFCL::internal::ProxySentinel
- pseudoCA()
: pseudoCA
- pseudoCAbond()
: pseudoCAbond
- PseudoCAMultifunc()
: PseudoCAMultifunc
- pseudoTrace()
: pseudoTrace
- pseudoTraceRecords()
: pseudoTraceRecords
- psi()
: Mode
, numeric::EulerAngles< T >
- psi_degrees()
: numeric::EulerAngles< T >
- psi_radians()
: numeric::EulerAngles< T >
- ptr_registry()
: utility::factory::Factory< P >
- ptr_registry_transfer()
: utility::factory::Factory< P >
- public_pick_fragments()
: VarLengthBuildKristin
- public_release()
: utility::Version
- pure_test_p()
: test.T850_SubClassing.PyOverloadTest
, utility::py::OverloadTest
- pure_test_ref()
: test.T850_SubClassing.PyOverloadTest
, utility::py::OverloadTest
- purge_address()
: pyrosetta.distributed.cluster.logging_handlers.MultiSocketHandler
- purge_all()
: pyrosetta.distributed.cluster.logging_handlers.MultiSocketHandler
- push()
: detail::dynamic_arg_list
, job_manager.StatusWindow
, ObjexxFCL::internal::ObserverGraph
- push_back()
: detail::buffer< T >
, dynamic_format_arg_store< Context >
, numeric::IntervalSet< T >
, ObjexxFCL::Chunk< T >
, ObjexxFCL::ChunkVector< T >
, ui::util::TreeNodeModel< T >::Node
, utility::graph::DirectedEdgeList
, utility::graph::EdgeList
, utility::keys::ClassKeyVector< K, T, C >
, utility::keys::KeyVector< K, T >
, utility::keys::SmallKeyVector< K, T >
, utility::options::VectorOption_T_< K, T >
- push_front()
: utility::graph::DirectedEdgeList
, utility::graph::EdgeList
- push_node()
: utility::tag::XMLErrorHandler
- push_status()
: job_manager.AppWindow
- 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_coordinate_constraints()
: myspace::Scheduler
- 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
- px()
: numeric::HomogeneousTransform< T >
, numeric::xyzTransform< T >
- py()
: numeric::HomogeneousTransform< T >
, numeric::xyzTransform< T >
- pybind11_include_file()
: binder::Config
- pythag()
: basic::svd::SVD_Solver
- pz()
: numeric::HomogeneousTransform< T >
, numeric::xyzTransform< T >