- a -

• a : basic::sampling::orientations::Triple
• A_is_decomp_ : basic::svd::SVD_Solver
• A_is_set_ : basic::svd::SVD_Solver
• aa_codes : app.pyrosetta_toolkit.modules.DesignBreakdown.DesignBreakdown
• abinitio : app.surface_docking.movers.Abinitio
• abstract : tools.CppParser.CppClass
• accept_ : myMC
• accessed_options_ : utility::tag::Tag
• actions_ : utility::json_spirit::Json_grammer< Value_type, Iter_type >
• active_ : utility::Bound< typename >
• active_label_current_accessible_sa : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• active_label_current_relative_mutability : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• active_label_current_surface_probability : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• active_label_design_accessible_sa : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• active_label_design_relative_mutability : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• active_label_design_surface_probability : app.pyrosetta_toolkit.window_modules.design.ResfileDesignWindow.ResfileDesignWindow
• active_set : Solver
• active_size : Solver
• add_constructor : yaml.constructor.BaseConstructor
• add_implicit_resolver : yaml.resolver.BaseResolver
• add_loption : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• add_multi_constructor : yaml.constructor.BaseConstructor
• add_multi_representer : yaml.representer.BaseRepresenter
• add_option : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• add_param_to_session_button : app.pyrosetta_toolkit.window_modules.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager.ligand_ncaa_ptm_manager
• add_path_resolver : yaml.resolver.BaseResolver
• add_representer : yaml.representer.BaseRepresenter
• additional_decoy_info : src.PyJobDistributor
• AddLoopButton : app.pyrosetta_toolkit.window_main.frames.InputFrame.InputFrame
• ads_constraints : app.surface_docking.movers.FullAtomRelax
• ads_cst : app.surface_docking.movers.FullAtomRelax
• ala_interface_ : HDdesignMover
• alias_key : yaml.representer.BaseRepresenter
• all_ : utility::options::OptionCollection
• all_at_once_base : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_at_once_cpp : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_at_once_json : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_at_once_lib : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_at_once_obj : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_at_once_relative_files : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_at_once_source_cpp : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_at_once_xml : BuildBindings.ModuleBuilder , BuildPackagedBindings.ModuleBuilder
• all_messages_ : utility::SimulateMPIData
• all_tracers_ : basic::TracerManager
• allfrags : FragmentAssemblyMover
• allow_block : yaml.emitter.ScalarAnalysis
• allow_block_plain : yaml.emitter.ScalarAnalysis
• allow_double_quoted : yaml.emitter.ScalarAnalysis
• allow_flow_plain : yaml.emitter.ScalarAnalysis
• allow_null_ : basic::database::schema_generator::Column
• allow_simple_key : yaml.scanner.Scanner
• allow_single_quoted : yaml.emitter.ScalarAnalysis
• allow_unicode : yaml.emitter.Emitter
• alpha : decision_function , Solver
• alpha_status : Solver
• alternative_search_paths_ : utility::io::izstream
• amide_mm_ : UBQ_GTPaseMover
• analysis : yaml.emitter.Emitter
• anchor : APDBCMover , yaml.events.CollectionStartEvent , yaml.events.NodeEvent , yaml.events.ScalarEvent
• ANCHOR_TEMPLATE : yaml.serializer.Serializer
• anchors : yaml.composer.Composer , yaml.serializer.Serializer
• angle_scorefxn_ : zinc1_homodimer_design
• any_vectors_ : utility::options::OptionCollection
• anys_ : utility::options::OptionCollection
• argsTypes : tools.CppParser.CppFunction
• argv_copy_ : utility::options::OptionCollection
• array_ : ObjexxFCL::CArray< typename > , ObjexxFCL::CArrayP< typename > , ObjexxFCL::Chunk< T > , ObjexxFCL::FArray< typename > , ObjexxFCL::FArraySection< typename > , utility::fixedsizearray0< T, S > , utility::fixedsizearray1< T, S > , utility::json_spirit::Json_grammer< Value_type, Iter_type >::definition< ScannerT >
• array_ptr_ : utility::fixedsizearray0const_iterator< T, S > , utility::fixedsizearray0iterator< T, S > , utility::fixedsizearray1const_iterator< T, S > , utility::fixedsizearray1iterator< T, S >
• array_size_ : ObjexxFCL::FArray< typename >
• artificial : tools.CppParser.CppFunction
• assign_ss_ : MyScoreMover
• assigned_frags : FragmentAssemblyMover
• assignment : numeric::CalculatorParser
• AtmNum : PDBInfo.PDB
• AtmTyp : PDBInfo.PDB
• atom1 : calccontacts.atom_contact
• atom2 : calccontacts.atom_contact
• atom_name : pep_coord_cst
• atomContactList : calccontacts.resContact
• atomic_group : PDBInfo.PDB , PhiPsi.ATOMinfo
• atomid : calccontacts.shellAtom
• atomIDs : UBQ_E2Mover , UBQ_GTPase_disulfide_Mover , UBQ_GTPaseMover
• atomlist : loadPDB.PDBres
• atomname : calccontacts.shellAtom
• atomname_column : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• atomname_entry : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• atomname_label : app.pyrosetta_toolkit.window_modules.insert_bfactor.InsertBFactor.InsertBFactor
• atomno_ : numeric::geometry::hashing::Ball
• atoms_ : sidechain_cst_3.Residue
• atomtype : loadPDB.new_PDBatom , loadPDB.PDBatom
• attributes_ : utility::tag::XMLSchemaComplexType
• auto_increment_ : basic::database::schema_generator::Column
• auto_increment_base_ : basic::database::schema_generator::Column
• auto_write : app.pyrosetta_toolkit.window_main.IO.GUIOutput.GUIOutput
• AvNAPSA_values_ : supercharge