Index – _

_2AX_3EQ_4AX_LINKS (pyrosetta.rosetta.core.scoring.carbohydrates.CHIEnergyFunctionLinkageType attribute) _2EQ_3AX_4EQ_LINKS (pyrosetta.rosetta.core.scoring.carbohydrates.CHIEnergyFunctionLinkageType attribute) __PyRosetta_instantiate_vector1_MutableResidueType_and_MolFileIOMolecule_types() (in module pyrosetta.rosetta.core.chemical.sdf) _abc_cache (pyrosetta.bindings.pose.PoseResidueAccessor attribute) (pyrosetta.bindings.pose.PoseResidueLabelMaskAccessor attribute) (pyrosetta.bindings.pose.PoseScoreAccessor attribute) (pyrosetta.bindings.pose.ResidueLabelAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileEnergyAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileMap attribute) (pyrosetta.io.silent_file_map.SilentFilePoseAccessor attribute) _abc_negative_cache (pyrosetta.bindings.pose.PoseResidueAccessor attribute) (pyrosetta.bindings.pose.PoseResidueLabelMaskAccessor attribute) (pyrosetta.bindings.pose.PoseScoreAccessor attribute) (pyrosetta.bindings.pose.ResidueLabelAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileEnergyAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileMap attribute) (pyrosetta.io.silent_file_map.SilentFilePoseAccessor attribute) _abc_negative_cache_version (pyrosetta.bindings.pose.PoseResidueAccessor attribute) (pyrosetta.bindings.pose.PoseResidueLabelMaskAccessor attribute) (pyrosetta.bindings.pose.PoseScoreAccessor attribute) (pyrosetta.bindings.pose.ResidueLabelAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileEnergyAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileMap attribute) (pyrosetta.io.silent_file_map.SilentFilePoseAccessor attribute) _abc_registry (pyrosetta.bindings.pose.PoseResidueAccessor attribute) (pyrosetta.bindings.pose.PoseResidueLabelMaskAccessor attribute) (pyrosetta.bindings.pose.PoseScoreAccessor attribute) (pyrosetta.bindings.pose.ResidueLabelAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileEnergyAccessor attribute) (pyrosetta.io.silent_file_map.SilentFileMap attribute) (pyrosetta.io.silent_file_map.SilentFilePoseAccessor attribute) _abs_tolerance (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) _add_weights_from_file() (pyrosetta.rosetta.core.scoring.DockingScoreFunction method) (pyrosetta.rosetta.core.scoring.MinScoreScoreFunction method) (pyrosetta.rosetta.core.scoring.ScoreFunction method) (pyrosetta.rosetta.core.scoring.symmetry.SymmetricScoreFunction method) (pyrosetta.rosetta.protocols.flexpack.OtherContextScoreFunction method) _add_weights_from_stream() (pyrosetta.rosetta.core.scoring.DockingScoreFunction method) (pyrosetta.rosetta.core.scoring.MinScoreScoreFunction method) (pyrosetta.rosetta.core.scoring.ScoreFunction method) (pyrosetta.rosetta.core.scoring.symmetry.SymmetricScoreFunction method) (pyrosetta.rosetta.protocols.flexpack.OtherContextScoreFunction method) _addExpectedFailure() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _addSkip() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _addUnexpectedSuccess() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _AE_cdr_detection_failed_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _AE_cdr_undefined_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _AE_grafting_failed_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _AE_invalid_cdr_region_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _AE_json_cdr_detection_failed_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _AE_numbering_failed_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _AE_scs_failed_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _AE_unexpected_region_length_ (class in pyrosetta.rosetta.protocols.antibody.grafting) _asdict() (pyrosetta.CD method) _atom_pair_energy_table() (in module pyrosetta.toolbox.atom_pair_energy) _ATOM_RADIUS (class in pyrosetta.rosetta.core.scoring.sc) _ax (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) _baseAssertEqual() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _bx (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) _classSetupFailed (pyrosetta.tests.bindings.core.test_pose.TestPoseIO attribute) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor attribute) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor attribute) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor attribute) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent attribute) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs attribute) _dE_dvars (pyrosetta.rosetta.core.optimization.func_1d property) _deprecate() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _deriv_sum (pyrosetta.rosetta.core.optimization.ArmijoLineMinimization property) (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) (pyrosetta.rosetta.core.optimization.LineMinimizationAlgorithm property) (pyrosetta.rosetta.core.optimization.StrongWolfeLineMinimization property) _diffThreshold (pyrosetta.tests.bindings.core.test_pose.TestPoseIO attribute) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor attribute) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor attribute) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor attribute) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent attribute) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs attribute) _DOT (class in pyrosetta.rosetta.core.scoring.sc) _feedErrorsToResult() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _fields (pyrosetta.CD attribute) _formatMessage() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _from_iterable() (pyrosetta.bindings.pose.ResidueLabelAccessor class method) _func_to_beat (pyrosetta.rosetta.core.optimization.ArmijoLineMinimization property) (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) (pyrosetta.rosetta.core.optimization.LineMinimizationAlgorithm property) (pyrosetta.rosetta.core.optimization.StrongWolfeLineMinimization property) _getAssertEqualityFunc() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method)

_hash() (pyrosetta.bindings.pose.ResidueLabelAccessor method) _HashEntry (class in pyrosetta.rosetta.protocols.abinitio) _is_interactive() (in module pyrosetta) _last_accepted_step (pyrosetta.rosetta.core.optimization.ArmijoLineMinimization property) (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) (pyrosetta.rosetta.core.optimization.LineMinimizationAlgorithm property) (pyrosetta.rosetta.core.optimization.StrongWolfeLineMinimization property) _M_getloc() (pyrosetta.rosetta.std.ios_base method) _M_id() (pyrosetta.rosetta.std.locale.id method) _M_write() (pyrosetta.logging_support.PythonLoggingSink method) (pyrosetta.rosetta.basic.basic_otstream_char_std_char_traits_char_t method) (pyrosetta.rosetta.basic.ComparingTracer method) (pyrosetta.rosetta.basic.MemTracerImpl method) (pyrosetta.rosetta.basic.MemTracerImpl.TracerProxyImpl method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.TracerImpl method) (pyrosetta.rosetta.basic.TracerImpl.TracerProxyImpl method) (pyrosetta.rosetta.basic.TracerToFile method) (pyrosetta.rosetta.protocols.frag_picker.QuotaDebug method) (pyrosetta.rosetta.std.iostream method) (pyrosetta.rosetta.std.ofstream method) (pyrosetta.rosetta.std.ostream method) (pyrosetta.rosetta.std.ostringstream method) (pyrosetta.rosetta.std.stringstream method) (pyrosetta.rosetta.std.wostream method) (pyrosetta.rosetta.utility.io.mpi_stream.basic_mpi_ostream_char_std_char_traits_char_std_allocator_char_unsigned_char_std_allocator_unsigned_char_t method) _make() (pyrosetta.CD class method) _map_string_vector_Real (class in pyrosetta.rosetta.protocols.indexed_structure_store) _map_string_vector_Size (class in pyrosetta.rosetta.protocols.indexed_structure_store) _map_string_vector_vector_Real (class in pyrosetta.rosetta.protocols.indexed_structure_store) _MergableEntries (class in pyrosetta.rosetta.protocols.abinitio) _nonmonotone (pyrosetta.rosetta.core.optimization.StrongWolfeLineMinimization property) _num_calls (pyrosetta.rosetta.core.optimization.ArmijoLineMinimization property) (pyrosetta.rosetta.core.optimization.StrongWolfeLineMinimization property) _num_linemin_calls (pyrosetta.rosetta.core.optimization.ArmijoLineMinimization property) (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) (pyrosetta.rosetta.core.optimization.LineMinimizationAlgorithm property) (pyrosetta.rosetta.core.optimization.StrongWolfeLineMinimization property) _open_bz2_compressed() (in module pyrosetta.io.silent_file_map) _open_gzip_compressed() (in module pyrosetta.io.silent_file_map) _pmatch() (pyrosetta.rosetta.protocols.noesy_assign.FloatingResonance method) (pyrosetta.rosetta.protocols.noesy_assign.LabelResonance method) (pyrosetta.rosetta.protocols.noesy_assign.ProtonResonance method) (pyrosetta.rosetta.protocols.noesy_assign.Resonance method) _PROBE (class in pyrosetta.rosetta.core.scoring.sc) _read_file() (pyrosetta.rosetta.core.io.silent.SilentFileData method) _reisude_pair_energies() (in module pyrosetta.toolbox.atom_pair_energy) _replace() (pyrosetta.CD method) _repr_pretty_() (pyrosetta.bindings.pose.PoseResidueLabelAccessor method) (pyrosetta.bindings.pose.PoseScoreAccessor method) (pyrosetta.bindings.pose.ResidueLabelAccessor method) _reserved (pyrosetta.bindings.pose.PoseScoreAccessor attribute) _RESULTS (class in pyrosetta.rosetta.core.scoring.sc) _RNA_MatchType_ (class in pyrosetta.rosetta.core.fragment.rna) _rosetta_database_from_env() (in module pyrosetta) _rotation_axis_angle_instantiation_for_PyRosetta() (in module pyrosetta.rosetta.numeric) _source (pyrosetta.CD attribute) _static_type_name() (pyrosetta.rosetta.core.fragment.BBTorsionAndAnglesSRFD static method) (pyrosetta.rosetta.core.fragment.BBTorsionSRFD static method) (pyrosetta.rosetta.core.fragment.DownJumpSRFD static method) (pyrosetta.rosetta.core.fragment.Frame static method) (pyrosetta.rosetta.core.fragment.IndependentBBTorsionSRFD static method) (pyrosetta.rosetta.core.fragment.JumpingFrame static method) (pyrosetta.rosetta.core.fragment.NonContinuousFrame static method) (pyrosetta.rosetta.core.fragment.SecstructSRFD static method) (pyrosetta.rosetta.core.fragment.SingleResidueFragData static method) (pyrosetta.rosetta.core.fragment.UpJumpSRFD static method) (pyrosetta.rosetta.protocols.enzdes.EnzdesFlexibleRegion static method) (pyrosetta.rosetta.protocols.topology_broker.AsymFoldandDockClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.BasicJumpClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.ConstraintClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.CoordConstraintClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.CutBiasClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.DensityScoringClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.DisulfJumpClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.FibrilModelingClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.FoldandDockClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.FragmentClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.FragmentJumpClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.LoopFragmentClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.MembraneTopologyClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.MetalloClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.PcsEnergyController static method) (pyrosetta.rosetta.protocols.topology_broker.PseudocontactShiftEnergyController static method) (pyrosetta.rosetta.protocols.topology_broker.PseudocontactShiftEnergyController_Ts1 static method) (pyrosetta.rosetta.protocols.topology_broker.PseudocontactShiftEnergyController_Ts2 static method) (pyrosetta.rosetta.protocols.topology_broker.PseudocontactShiftEnergyController_Ts3 static method) (pyrosetta.rosetta.protocols.topology_broker.PseudocontactShiftEnergyController_Ts4 static method) (pyrosetta.rosetta.protocols.topology_broker.RigidChunkClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.SequenceClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.StartStructClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.SymmetryClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.TemplateFragmentClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.TemplateJumpClaimer static method) (pyrosetta.rosetta.protocols.topology_broker.TMHTopologySamplerClaimer static method) _stored_derivatives (pyrosetta.rosetta.core.optimization.ArmijoLineMinimization property) (pyrosetta.rosetta.core.optimization.BrentLineMinimization property) (pyrosetta.rosetta.core.optimization.LineMinimizationAlgorithm property) (pyrosetta.rosetta.core.optimization.StrongWolfeLineMinimization property) _truncateMessage() (pyrosetta.tests.bindings.core.test_pose.TestPoseIO method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseResidueLabelAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPoseScoresAccessor method) (pyrosetta.tests.bindings.core.test_pose.TestPosesToSilent method) (pyrosetta.tests.distributed.test_dask_worker.TestDaskArgs method) _vector_extend_func() (in module pyrosetta) _version_string() (in module pyrosetta) _VOID (pyrosetta.rosetta.protocols.enzdes.CstAction attribute) _write_silent_struct() (pyrosetta.rosetta.core.io.silent.SilentFileData method) _xmlNode (class in pyrosetta.rosetta) _xx (pyrosetta.rosetta.core.optimization.BrentLineMinimization property)