- 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
• package_data : setup.PyRosettaDistribution
• packages : setup.PyRosettaDistribution
• packer_neighbor_graph_ : InteractionGraphPerformanceBenchmark
• pair_ : utility::json_spirit::Json_grammer< Value_type, Iter_type >::definition< ScannerT >
• pair_scorefxn_ : zinc1_homodimer_design
• 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::HierarchicalDataMap , numeric::ClusteringTreeNode , numeric::kdtree::KDNode
• parentTag_ : utility::tag::Tag
• parsed_protocol : src.protocols.jd2.RosettaScriptWrapper
• 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
• 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 >
• paths_ : utility::graph::RingDetection< Graph > , utility::options::OptionCollection
• pausing_ : utility::signals::PausableSignalHub< ResultType, Signal >
• pdb : app.pyrosetta_toolkit.modules.Structure.Antibody_Structure
• pdb_chain_ : HDmakerMover
• pdb_chain_no_ : PhProtocol
• pdb_file_name_ : PhProtocol
• pdb_file_path : app.pyrosetta_toolkit.modules.PythonPDB.PythonPDB
• 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_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
• pep_pos : pep_coord_cst
• periodic_ : numeric::interpolation::Histogram< typename, typename >
• perturb_cycles : app.pyrosetta_toolkit.modules.protocols.FloppyTailProtocol.FloppyTailProtocol
• pH_neighbor_pack_ : PhProtocol
• pH_prepack_ : PhProtocol
• pH_relax_ : PhProtocol
• phi_ : numeric::sphericalVector< 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
• pimpl_ : utility::tag::XMLSchemaComplexTypeGenerator
• pinstance_ : numeric::model_quality::RmsData
• 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
• pointer : fmt::internal::Value , yaml.error.Mark , yaml.reader.Reader
• points_ : numeric::interpolation::spline::SplineGenerator
• polynomial_name_ : numeric::Polynomial_1d
• polypep : loadPDB.ProteinChain
• pos2frags : FragmentAssemblyMover
• pos_ : FragID
• pos_of_read_buffer_end_in_py_file : boost_adaptbx::python::streambuf
• pos_of_write_buffer_end_in_py_file : 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
• position : yaml.reader.ReaderError
• position_ : utility::fixedsizearray0const_iterator< T, S > , utility::fixedsizearray0iterator< T, S > , utility::fixedsizearray1const_iterator< T, S > , utility::fixedsizearray1iterator< T, S >
• posn_begin_ : utility::json_spirit::Stream_reader_thrower< Istream_type, Value_type >
• posn_end_ : utility::json_spirit::Stream_reader_thrower< Istream_type, Value_type >
• possible_simple_keys : yaml.scanner.Scanner
• POWERS_OF_10_32 : fmt::internal::BasicData< T >
• POWERS_OF_10_64 : fmt::internal::BasicData< T >
• pq_schema_ : utility::sql_database::session
• precision_ : fmt::FormatSpec
• precompute_pml_ : numeric::fourier::SHT
• precompute_pml_trans_ : numeric::fourier::SHT
• precompute_wig_trans_ : numeric::fourier::SHT
• prefix : binder::Config
• prefix_code_ : binder::ClassBinder
• prefix_includes : binder::ClassBinder
• prepared_anchor : yaml.emitter.Emitter
• prepared_tag : yaml.emitter.Emitter
• pretty_ : numeric::expression_parser::ASTPrinter , utility::json_spirit::Generator< Value_type, Ostream_type >
• prev : Cache::head_t
• prev_ : utility::list_element< T >
• primary_key_ : basic::database::schema_generator::Schema
• print_channel_name : basic::TracerOptions
• printflags : numeric::nls::lm_control_struct
• printid : calccontacts.shellAtom , loadPDB.PDBres
• priority_ : basic::Tracer , basic::Tracer::TracerProxy
• private : tools.CppParser.CppFunction
• probA : svm_model
• probability : svm_parameter
• probB : svm_model
• problem : yaml.error.MarkedYAMLError
• problem_mark : yaml.error.MarkedYAMLError
• processed_ : utility::SimulateMPIMessage
• 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
• 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
• psformat64 : numeric::random::mt19937_RG
• psibin_ : ScoreFragInfo
• PsiVar : app.pyrosetta_toolkit.window_modules.full_control.FullControlWindow.FullControlWindow
• pt_ : numeric::kdtree::KDNode
• ptr_ : fmt::Buffer< T >
• public : tools.CppParser.CppEnum , tools.CppParser.CppFunction , tools.CppParser.CppVariable
• pure_virtual : tools.CppParser.CppFunction
• 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 >
• 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
• python_streambuf : boost_adaptbx::python::streambuf_capsule
• PythonPDB : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• pz_ : numeric::HomogeneousTransform< T >