Index

_

__add__() (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.utility.CSI_Sequence method) __call__() (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) __delattr__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __dir__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __dummy__() (in module pyrosetta.rosetta.utility) __eq__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __eq__() (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) __format__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __ge__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __getattribute__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __getitem__() (in module pyrosetta.method_bindings.pose) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) __getstate__() (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) __gt__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __hash__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __hash__() (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) __iadd__() (in module pyrosetta.method_bindings.pose) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) __idiv__() (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) __imul__() (in module pyrosetta.method_bindings.pose) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) __init__ (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) __init__() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __init_subclass__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __int__() (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) __isub__() (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) __iter__() (in module pyrosetta.method_bindings.pose) __le__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute)

__len__() (in module pyrosetta.method_bindings.pose) __lt__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __ne__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __ne__() (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) __new__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __reduce__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __reduce_ex__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __repr__ (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __repr__() (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) __setattr__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Cstring attribute) (pyrosetta.rosetta.ObjexxFCL.Dimension attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub attribute) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum attribute) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Fstring attribute) (pyrosetta.rosetta.ObjexxFCL.Fsubstring attribute) (pyrosetta.rosetta.ObjexxFCL.IndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.CSI_Sequence attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __setstate__() (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) __sizeof__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __str__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent attribute) (pyrosetta.rosetta.ObjexxFCL.Observer attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti attribute) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle attribute) (pyrosetta.rosetta.ObjexxFCL.Star attribute) (pyrosetta.rosetta.ObjexxFCL.byte attribute) (pyrosetta.rosetta.ObjexxFCL.ubyte attribute) (pyrosetta.rosetta.W128_T attribute) (pyrosetta.rosetta.basic.Emitter attribute) (pyrosetta.rosetta.basic.ExecutionResult attribute) (pyrosetta.rosetta.basic.JsonEmitter attribute) (pyrosetta.rosetta.basic.PyTracer attribute) (pyrosetta.rosetta.basic.Report attribute) (pyrosetta.rosetta.basic.Reporter attribute) (pyrosetta.rosetta.basic.Tracer attribute) (pyrosetta.rosetta.basic.TracerManager attribute) (pyrosetta.rosetta.basic.TracerOptions attribute) (pyrosetta.rosetta.basic.TracerPriority attribute) (pyrosetta.rosetta.basic.YamlEmitter attribute) (pyrosetta.rosetta.protocols.LoopRebuild attribute) (pyrosetta.rosetta.protocols.LoopRefine attribute) (pyrosetta.rosetta.utility.SimulateMPI attribute) (pyrosetta.rosetta.utility.recent_history_queue attribute) (pyrosetta.rosetta.utility.simulate_mpi_message_type attribute) (pyrosetta.rosetta.utility.subset_mapping attribute) __str__() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.utility.CSI_Sequence method) __sub__() (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) __subclasshook__() (pyrosetta.CD method) (pyrosetta.EnergyMethod method) (pyrosetta.rosetta.ObjexxFCL.ChunkExponent method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) (pyrosetta.rosetta.ObjexxFCL.Star method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.TracerManager method) (pyrosetta.rosetta.basic.TracerOptions method) (pyrosetta.rosetta.basic.TracerPriority method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.SimulateMPI method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.simulate_mpi_message_type method) (pyrosetta.rosetta.utility.subset_mapping method) __weakref__ (pyrosetta.CD attribute) (pyrosetta.EnergyMethod attribute) _M_write() (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Tracer method) _notebook_logging_callback() (in module pyrosetta.logging_support) _rosetta_database_from_env() (in module pyrosetta)

A

access_Real_MathNTensor() (in module pyrosetta.rosetta.numeric) acyclic() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) add_all_rosetta_options() (in module pyrosetta.rosetta) add_rosetta_options_0() (in module pyrosetta.rosetta) add_rosetta_options_1() (in module pyrosetta.rosetta) add_rosetta_options_10() (in module pyrosetta.rosetta) add_rosetta_options_11() (in module pyrosetta.rosetta) add_rosetta_options_12() (in module pyrosetta.rosetta) add_rosetta_options_13() (in module pyrosetta.rosetta) add_rosetta_options_14() (in module pyrosetta.rosetta) add_rosetta_options_15() (in module pyrosetta.rosetta) add_rosetta_options_2() (in module pyrosetta.rosetta) add_rosetta_options_3() (in module pyrosetta.rosetta) add_rosetta_options_4() (in module pyrosetta.rosetta) add_rosetta_options_5() (in module pyrosetta.rosetta) add_rosetta_options_6() (in module pyrosetta.rosetta) add_rosetta_options_7() (in module pyrosetta.rosetta) add_rosetta_options_8() (in module pyrosetta.rosetta) add_rosetta_options_9() (in module pyrosetta.rosetta) all_tracers() (pyrosetta.rosetta.basic.TracerManager method) angle_degrees() (in module pyrosetta.rosetta.numeric) angle_degrees_double() (in module pyrosetta.rosetta.numeric) angle_in_range() (in module pyrosetta.rosetta.basic) angle_radians() (in module pyrosetta.rosetta.numeric) angle_radians_double() (in module pyrosetta.rosetta.numeric) apply() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method)

arg_min() (in module pyrosetta.rosetta.utility) assign() (pyrosetta.rosetta.basic.ExecutionResult method) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) (pyrosetta.rosetta.W128_T method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Reporter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) (pyrosetta.rosetta.utility.CSI_Sequence method) (pyrosetta.rosetta.utility.recent_history_queue method) (pyrosetta.rosetta.utility.subset_mapping method) assign_if() (pyrosetta.rosetta.ObjexxFCL.Dimension method) assign_if_bigger() (pyrosetta.rosetta.ObjexxFCL.Dimension method) assign_if_bigger_nic() (pyrosetta.rosetta.ObjexxFCL.Dimension method) assign_if_half() (pyrosetta.rosetta.ObjexxFCL.Dimension method) assign_if_half_nic() (pyrosetta.rosetta.ObjexxFCL.Dimension method) assign_if_nic() (pyrosetta.rosetta.ObjexxFCL.Dimension method) assign_no_notify() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) assign_value_of() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method)

B

bind_method() (in module pyrosetta.util) blank() (in module pyrosetta.rosetta.ObjexxFCL) boltzmann_accept_probability() (in module pyrosetta.rosetta.numeric) bounded() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method)

bounded_value() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) buf() (pyrosetta.rosetta.basic.PyTracer method) byte (class in pyrosetta.rosetta.ObjexxFCL)

C

c_str() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) calc_dihedral() (in module pyrosetta.toolbox.numpy_utils) calc_quadratic() (in module pyrosetta.rosetta.basic) calculate_tracer_visibilities() (pyrosetta.rosetta.basic.Tracer method) ccd_angle() (in module pyrosetta.rosetta.numeric) CD (class in pyrosetta) center() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) centered() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) channel() (pyrosetta.rosetta.basic.Tracer method) channel_color() (pyrosetta.rosetta.basic.Tracer method) channel_name_color() (pyrosetta.rosetta.basic.Tracer method) char_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) ChunkExponent (class in pyrosetta.rosetta.ObjexxFCL) cleanATOM() (in module pyrosetta.toolbox) (in module pyrosetta.toolbox.cleaning) cleanCRYS() (in module pyrosetta.toolbox) (in module pyrosetta.toolbox.cleaning) clear() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) (pyrosetta.rosetta.utility.recent_history_queue method) clear_info() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) clear_no_notify() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) clone() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) code_from_6bit() (in module pyrosetta.rosetta.utility) code_to_6bit() (in module pyrosetta.rosetta.utility) collapse() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) compress() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method)

compressed() (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) cond_exit() (in module pyrosetta.rosetta.utility) const_access_Real_MathNTensor() (in module pyrosetta.rosetta.numeric) constant() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) contain() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) contain_nic() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) contains() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) copy() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) copysign() (in module pyrosetta.rosetta.utility) counts() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) create() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) cross() (in module pyrosetta.rosetta.numeric) CSI_bgBlack() (in module pyrosetta.rosetta.utility) CSI_bgBlue() (in module pyrosetta.rosetta.utility) CSI_bgCyan() (in module pyrosetta.rosetta.utility) CSI_bgDefault() (in module pyrosetta.rosetta.utility) CSI_bgGreen() (in module pyrosetta.rosetta.utility) CSI_bgMagenta() (in module pyrosetta.rosetta.utility) CSI_bgRed() (in module pyrosetta.rosetta.utility) CSI_bgWhite() (in module pyrosetta.rosetta.utility) CSI_bgYellow() (in module pyrosetta.rosetta.utility) CSI_Black() (in module pyrosetta.rosetta.utility) CSI_Blue() (in module pyrosetta.rosetta.utility) CSI_Bold() (in module pyrosetta.rosetta.utility) CSI_Cyan() (in module pyrosetta.rosetta.utility) CSI_Default() (in module pyrosetta.rosetta.utility) CSI_Green() (in module pyrosetta.rosetta.utility) CSI_Magenta() (in module pyrosetta.rosetta.utility) CSI_Nothing() (in module pyrosetta.rosetta.utility) CSI_Red() (in module pyrosetta.rosetta.utility) CSI_Reset() (in module pyrosetta.rosetta.utility) CSI_Sequence (class in pyrosetta.rosetta.utility) CSI_Underline() (in module pyrosetta.rosetta.utility) CSI_White() (in module pyrosetta.rosetta.utility) CSI_Yellow() (in module pyrosetta.rosetta.utility) Cstring (class in pyrosetta.rosetta.ObjexxFCL) cube() (in module pyrosetta.rosetta.numeric) (in module pyrosetta.rosetta.ObjexxFCL) curr_num_in_recent_history() (pyrosetta.rosetta.utility.recent_history_queue method)

D

d2s() (pyrosetta.rosetta.utility.subset_mapping method) data() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) date() (in module pyrosetta.rosetta.ObjexxFCL) ddG_main() (in module pyrosetta.rosetta.protocols) decode6bit() (in module pyrosetta.rosetta.utility) decode_32_to_24() (in module pyrosetta.rosetta.utility) depth() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method) desired_loops() (pyrosetta.rosetta.protocols.LoopRebuild method) destination_size() (pyrosetta.rosetta.utility.subset_mapping method) destructed() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method)

dihedral() (in module pyrosetta.rosetta.numeric) dihedral_degrees() (in module pyrosetta.rosetta.numeric) dihedral_degrees_double() (in module pyrosetta.rosetta.numeric) dihedral_double() (in module pyrosetta.rosetta.numeric) dihedral_radians() (in module pyrosetta.rosetta.numeric) dihedral_radians_double() (in module pyrosetta.rosetta.numeric) dim_labels() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) Dimension (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpression (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionCon (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionCube (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionDiv (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionMax (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionMin (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionMul (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionPow (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionRef (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionSquare (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionSub (class in pyrosetta.rosetta.ObjexxFCL) DimensionExpressionSum (class in pyrosetta.rosetta.ObjexxFCL) dncase() (in module pyrosetta.rosetta.ObjexxFCL) dot() (in module pyrosetta.rosetta.numeric) double_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) down_cast() (in module pyrosetta.rosetta.utility) dynamic_memory_usage() (pyrosetta.rosetta.utility.recent_history_queue method) DynamicIndexRange (class in pyrosetta.rosetta.ObjexxFCL)

E

eigenvalue_jacobi() (in module pyrosetta.rosetta.numeric) eigenvector_jacobi() (in module pyrosetta.rosetta.numeric) Emitter (class in pyrosetta.rosetta.basic) empty() (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) encode6bit() (in module pyrosetta.rosetta.utility) encode_24_to_32() (in module pyrosetta.rosetta.utility) end() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method) (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) end_list() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method) end_map() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method)

end_of_queue() (pyrosetta.rosetta.utility.recent_history_queue method) endswith() (in module pyrosetta.rosetta.utility) EnergyMethod (class in pyrosetta) equal() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) equal_by_epsilon() (in module pyrosetta.rosetta.numeric) equali() (in module pyrosetta.rosetta.ObjexxFCL) Error() (in module pyrosetta.rosetta.basic) etable_atom_pair_energies() (in module pyrosetta) execute() (in module pyrosetta.rosetta.basic) ExecutionResult (class in pyrosetta.rosetta.basic) exit() (in module pyrosetta.rosetta.utility) exp() (pyrosetta.rosetta.ObjexxFCL.Dimension method) exp_clone() (pyrosetta.rosetta.ObjexxFCL.Dimension method) exp_p() (pyrosetta.rosetta.ObjexxFCL.Dimension method) extended_loop() (pyrosetta.rosetta.protocols.LoopRebuild method) extract_coordinates_from_pose_1x3() (in module pyrosetta.toolbox.extract_coords_pose) extract_coordinates_from_pose_3x1() (in module pyrosetta.toolbox.extract_coords_pose)

F

file_basename() (in module pyrosetta.rosetta.utility) file_contents() (in module pyrosetta.rosetta.utility) filename() (in module pyrosetta.rosetta.utility) final_stream() (pyrosetta.rosetta.basic.Tracer method) find() (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_first_not_of() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_first_of() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_last() (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_last_non_whitespace() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_last_not_of() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_last_of() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_last_whitespace() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method)

find_non_whitespace() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) find_whitespace() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) float_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) flush() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Tracer method) (pyrosetta.rosetta.basic.YamlEmitter method) flush_all_channels() (pyrosetta.rosetta.basic.Tracer method) flush_all_tracers() (pyrosetta.rosetta.basic.Tracer method) fmt_real() (in module pyrosetta.rosetta.utility) fresh_instance() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) Fstring (class in pyrosetta.rosetta.ObjexxFCL) Fstring_of() (in module pyrosetta.rosetta.ObjexxFCL) Fsubstring (class in pyrosetta.rosetta.ObjexxFCL)

G

generate_nonstandard_residue_set() (in module pyrosetta) generate_resfile_from_pdb() (in module pyrosetta.toolbox) (in module pyrosetta.toolbox.generate_resfile) generate_resfile_from_pose() (in module pyrosetta.toolbox) (in module pyrosetta.toolbox.generate_resfile) get() (in module pyrosetta.rosetta.ObjexxFCL) get_abort_on_failed_loop() (pyrosetta.rosetta.protocols.LoopRebuild method) get_additional_output() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_all_channels_string() (pyrosetta.rosetta.basic.Tracer method) get_allowed_failure_before_extend() (pyrosetta.rosetta.protocols.LoopRebuild method) get_allowed_failure_before_stop() (pyrosetta.rosetta.protocols.LoopRebuild method) get_ccd_closure_exist() (pyrosetta.rosetta.protocols.LoopRebuild method) get_chain_break_tolerance() (pyrosetta.rosetta.protocols.LoopRebuild method) get_combine_if_fail_exist() (pyrosetta.rosetta.protocols.LoopRebuild method) get_coordinates_from_pose() (in module pyrosetta.toolbox.numpy_utils) get_current_job() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_current_tag() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_desired_loops_exist() (pyrosetta.rosetta.protocols.LoopRebuild method) get_hbonds() (in module pyrosetta.toolbox) get_input_pose() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_instance() (pyrosetta.rosetta.basic.TracerManager method) get_last_move_status() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_loop_combine_rate() (pyrosetta.rosetta.protocols.LoopRebuild method)

get_mc() (pyrosetta.rosetta.protocols.LoopRebuild method) get_name() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_native_pose() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_num_digits() (in module pyrosetta.rosetta.utility) get_pymol_chain() (in module pyrosetta.rosetta.basic) get_pymol_chain_index_1() (in module pyrosetta.rosetta.basic) get_pymol_num_unique_ids() (in module pyrosetta.rosetta.basic) get_random_loop_flag() (pyrosetta.rosetta.protocols.LoopRebuild method) get_Real_MathNTensor_dimension_size() (in module pyrosetta.rosetta.numeric) get_resnum_and_chain() (in module pyrosetta.rosetta.utility) get_resnum_and_chain_and_segid() (in module pyrosetta.rosetta.utility) get_resnum_and_chain_from_one_tag() (in module pyrosetta.rosetta.utility) get_resnum_and_segid() (in module pyrosetta.rosetta.utility) get_resnum_and_segid_from_one_tag() (in module pyrosetta.rosetta.utility) get_rmsd_tolerance() (pyrosetta.rosetta.protocols.LoopRebuild method) get_secstruct() (in module pyrosetta.toolbox) get_self_ptr() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_self_weak_ptr() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_success() (pyrosetta.rosetta.protocols.LoopRebuild method) get_type() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) get_undefined_real() (in module pyrosetta.rosetta.utility) get_undefined_size() (in module pyrosetta.rosetta.utility) get_usage_from_procfilesystem() (in module pyrosetta.rosetta.basic) getline() (in module pyrosetta.rosetta.ObjexxFCL)

H

handles_metric_value() (in module pyrosetta.rosetta.basic) has() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) has_any_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) has_insertion_operator() (in module pyrosetta.rosetta.utility) has_observer() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method)

has_prefix() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) has_suffix() (in module pyrosetta.rosetta.ObjexxFCL) head() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) head_of_queue() (pyrosetta.rosetta.utility.recent_history_queue method) history_size() (pyrosetta.rosetta.utility.recent_history_queue method) hsv_to_rgb() (in module pyrosetta.rosetta.numeric)

I

IACHAR() (in module pyrosetta.rosetta.ObjexxFCL) ICHAR() (in module pyrosetta.rosetta.ObjexxFCL) idate() (in module pyrosetta.rosetta.ObjexxFCL) index() (in module pyrosetta.rosetta.ObjexxFCL) IndexRange (class in pyrosetta.rosetta.ObjexxFCL) info() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) init() (in module pyrosetta) (in module pyrosetta.rosetta.basic) (pyrosetta.rosetta.basic.Tracer method) initialize_logging() (in module pyrosetta.logging_support) initialize_simulation() (pyrosetta.rosetta.utility.SimulateMPI method) initialized() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) inplace_product() (in module pyrosetta.rosetta.numeric) inplace_transpose_product() (in module pyrosetta.rosetta.numeric) insert_observer() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) int_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) integer() (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) interpolate_2d_func_of_angles() (in module pyrosetta.rosetta.basic) interpolate_bilinear() (in module pyrosetta.rosetta.basic) interpolate_bilinear_by_value() (in module pyrosetta.rosetta.basic) interpolate_get_angle_bins() (in module pyrosetta.rosetta.basic) interpolate_trilinear() (in module pyrosetta.rosetta.basic) interpolate_trilinear_by_value() (in module pyrosetta.rosetta.basic) intersect() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) intersect_nic() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) intersects() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method)

ints_of() (in module pyrosetta.rosetta.ObjexxFCL) inverse() (in module pyrosetta.rosetta.numeric) is_a_finitenumber() (in module pyrosetta.rosetta.numeric) is_any_of() (in module pyrosetta.rosetta.ObjexxFCL) is_blank() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_bool() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_char() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_double() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_false_string() (in module pyrosetta.rosetta.utility) is_float() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_flushed() (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Tracer method) is_int() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_ints() (in module pyrosetta.rosetta.ObjexxFCL) is_long() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_longdouble() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_short() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_string() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_string_numeric() (in module pyrosetta.rosetta.utility) is_true_string() (in module pyrosetta.rosetta.utility) is_type() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_uint() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_ulong() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_undefined() (in module pyrosetta.rosetta.utility) is_ushort() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) is_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) isinf() (in module pyrosetta.rosetta.utility) isnan() (in module pyrosetta.rosetta.utility) itime() (in module pyrosetta.rosetta.ObjexxFCL) ivalue() (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method)

J

join() (in module pyrosetta.rosetta.utility)

JsonEmitter (class in pyrosetta.rosetta.basic)

L

l() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) l_initialized() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) l_no_notify() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) label() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) last_index() (in module pyrosetta.rosetta.ObjexxFCL) last_proposal_density_ratio() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) left_justified() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) left_justify() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) left_string_of() (in module pyrosetta.rosetta.ObjexxFCL) legal() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) len() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) len_trim() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) len_trim_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) length() (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) lge() (in module pyrosetta.rosetta.ObjexxFCL) lgt() (in module pyrosetta.rosetta.ObjexxFCL)

ljust() (in module pyrosetta.rosetta.ObjexxFCL) lle() (in module pyrosetta.rosetta.ObjexxFCL) llt() (in module pyrosetta.rosetta.ObjexxFCL) load_from_rcsb() (in module pyrosetta.toolbox.rcsb) log() (in module pyrosetta.rosetta.numeric) long_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) longdouble_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) loop_model() (pyrosetta.rosetta.protocols.LoopRebuild method) LoopRebuild (class in pyrosetta.rosetta.protocols) LoopRefine (class in pyrosetta.rosetta.protocols) lower() (in module pyrosetta.rosetta.utility) lowercase() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) lowercased() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) lpad() (in module pyrosetta.rosetta.ObjexxFCL) lpadded() (in module pyrosetta.rosetta.ObjexxFCL) lstrip() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) lstrip_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) lstripped() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) lstripped_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) lz() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method)

M

make_segtag_with_dashes() (in module pyrosetta.rosetta.utility) make_tag() (in module pyrosetta.rosetta.utility) make_tag_with_dashes() (in module pyrosetta.rosetta.utility) max() (in module pyrosetta.rosetta.numeric) (in module pyrosetta.rosetta.ObjexxFCL) (in module pyrosetta.rosetta.utility) mean() (in module pyrosetta.rosetta.numeric) mean_squared_error() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) median() (in module pyrosetta.rosetta.numeric) min() (in module pyrosetta.rosetta.numeric) (in module pyrosetta.rosetta.ObjexxFCL) (in module pyrosetta.rosetta.utility) minirosetta_svn_url() (in module pyrosetta.rosetta.core)

minirosetta_svn_version() (in module pyrosetta.rosetta.core) minus_minus() (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) mod() (in module pyrosetta.rosetta.numeric) (in module pyrosetta.rosetta.ObjexxFCL) modulo() (in module pyrosetta.rosetta.numeric) (in module pyrosetta.rosetta.utility) mpi_nprocs() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) mpi_rank() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) MultiDimensionalHistogram (class in pyrosetta.rosetta.numeric) mutate_residue() (in module pyrosetta.toolbox)

N

name() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) nearest_ssize() (in module pyrosetta.rosetta.numeric) (in module pyrosetta.rosetta.ObjexxFCL) nint() (in module pyrosetta.rosetta.ObjexxFCL) nonnegative_principal_angle_degrees() (in module pyrosetta.rosetta.numeric) not_blank() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) not_unbounded() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) not_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method)

notify() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) notify_destructed() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) num_bins() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) num_dimensions() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) num_elements() (pyrosetta.rosetta.utility.recent_history_queue method) numpy_to_rosetta() (in module pyrosetta.toolbox.numpy_utils)

O

Observer (class in pyrosetta.rosetta.ObjexxFCL) observer_p() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) ObserverMulti (class in pyrosetta.rosetta.ObjexxFCL) ObserverSingle (class in pyrosetta.rosetta.ObjexxFCL) offset() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method)

outer_product() (in module pyrosetta.rosetta.numeric) output_callback() (pyrosetta.rosetta.basic.PyTracer method) output_prefix() (pyrosetta.rosetta.basic.Tracer method) output_scorefile() (in module pyrosetta) overlay() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method)

P

pad() (in module pyrosetta.rosetta.ObjexxFCL) pad_left() (in module pyrosetta.rosetta.utility) pad_right() (in module pyrosetta.rosetta.utility) padded() (in module pyrosetta.rosetta.ObjexxFCL) pathname() (in module pyrosetta.rosetta.utility) periodic_range() (in module pyrosetta.rosetta.basic) plus_plus() (pyrosetta.rosetta.ObjexxFCL.byte method) (pyrosetta.rosetta.ObjexxFCL.ubyte method) pos_in_history_queue() (pyrosetta.rosetta.utility.recent_history_queue method) pose_from_rcsb() (in module pyrosetta.toolbox.rcsb) pose_from_sequence() (in module pyrosetta.io) (in module pyrosetta.toolbox.mutants) poses_from_silent() (in module pyrosetta.io) positive() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) positive_value() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) pow() (in module pyrosetta.rosetta.ObjexxFCL) principal_angle_degrees() (in module pyrosetta.rosetta.numeric) principal_components_and_eigenvalues_ndimensions() (in module pyrosetta.rosetta.numeric) print_probabilities() (in module pyrosetta.rosetta.numeric) priority() (pyrosetta.rosetta.basic.Tracer method) product() (in module pyrosetta.rosetta.numeric) prof_reset() (in module pyrosetta.rosetta.basic) prof_show() (in module pyrosetta.rosetta.basic) prof_start_function_body() (in module pyrosetta.rosetta.basic)

prof_stop_function_body() (in module pyrosetta.rosetta.basic) projection_matrix() (in module pyrosetta.rosetta.numeric) push_to_front_of_history_queue() (pyrosetta.rosetta.utility.recent_history_queue method) put() (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Tracer method) pyrosetta (module) pyrosetta.io (module) pyrosetta.logging_support (module) pyrosetta.method_bindings (module) pyrosetta.method_bindings.pose (module) pyrosetta.rosetta (module) pyrosetta.rosetta.basic (module) pyrosetta.rosetta.core (module) pyrosetta.rosetta.cppdb (module) pyrosetta.rosetta.numeric (module) pyrosetta.rosetta.ObjexxFCL (module) pyrosetta.rosetta.protocols (module) pyrosetta.rosetta.std (module) pyrosetta.rosetta.utility (module) pyrosetta.teaching (module) pyrosetta.toolbox (module) pyrosetta.toolbox.cleaning (module) pyrosetta.toolbox.extract_coords_pose (module) pyrosetta.toolbox.generate_resfile (module) pyrosetta.toolbox.mutants (module) pyrosetta.toolbox.numpy_utils (module) pyrosetta.toolbox.rcsb (module) pyrosetta.util (module) PyTracer (class in pyrosetta.rosetta.basic)

Q

quoted_split() (in module pyrosetta.rosetta.utility)

R

rand_sleep() (in module pyrosetta.rosetta.utility) range() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) RBSegmentRelax_main() (in module pyrosetta.rosetta.protocols) read() (in module pyrosetta.rosetta.ObjexxFCL) read_metric_value() (in module pyrosetta.rosetta.basic) read_probabilities_or_die() (in module pyrosetta.rosetta.numeric) readsome() (in module pyrosetta.rosetta.ObjexxFCL) Real2string() (in module pyrosetta.rosetta.utility) receive_char_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_double_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_doubles_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_integer_from_anyone() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_integer_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_integers_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_size_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_sizes_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) receive_string_from_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) recent_history_queue (class in pyrosetta.rosetta.utility) record() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) reducible() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) ref() (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) reference() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) reference_copy() (pyrosetta.rosetta.ObjexxFCL.Dimension method) register_options() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) reinitialize_for_each_job() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method)

reinitialize_for_new_input() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) remove_observer() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) replace_environment_variables() (in module pyrosetta.rosetta.utility) replace_in() (in module pyrosetta.rosetta.utility) replace_spaces() (in module pyrosetta.rosetta.utility) Report (class in pyrosetta.rosetta.basic) Reporter (class in pyrosetta.rosetta.basic) reserve_destination_size() (pyrosetta.rosetta.utility.subset_mapping method) reset_counts() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) reset_status() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) restrict_non_nbrs_from_repacking() (in module pyrosetta.toolbox) rgb_to_hsv() (in module pyrosetta.rosetta.numeric) right_justified() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) right_justify() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) right_string_of() (in module pyrosetta.rosetta.ObjexxFCL) rigid_transform_3D() (in module pyrosetta.toolbox.numpy_utils) rjust() (in module pyrosetta.rosetta.ObjexxFCL) rotate_pose() (in module pyrosetta.toolbox.numpy_utils) rotation_axis() (in module pyrosetta.rosetta.numeric) rotation_matrix() (in module pyrosetta.rosetta.numeric) round() (in module pyrosetta.rosetta.utility) rpad() (in module pyrosetta.rosetta.ObjexxFCL) rpadded() (in module pyrosetta.rosetta.ObjexxFCL) rrange() (in module pyrosetta) rstrip() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) rstrip_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) rstripped() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) rstripped_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method)

S

s2d() (pyrosetta.rosetta.utility.subset_mapping method) same_ignoring_spaces() (in module pyrosetta.rosetta.utility) seekp() (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Tracer method) send_char_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) send_double_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) send_doubles_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) send_integer_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) send_integers_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) send_size_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) send_sizes_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) send_string_to_node() (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.utility.SimulateMPI method) Set() (in module pyrosetta) set_abort_on_failed_loop() (pyrosetta.rosetta.protocols.LoopRebuild method) set_allowed_failure_before_extend() (pyrosetta.rosetta.protocols.LoopRebuild method) set_allowed_failure_before_stop() (pyrosetta.rosetta.protocols.LoopRebuild method) set_current_job() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) set_current_tag() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) set_default_final_stream() (pyrosetta.rosetta.basic.Tracer method) set_default_mc() (pyrosetta.rosetta.protocols.LoopRebuild method) set_default_settings() (pyrosetta.rosetta.protocols.LoopRebuild method) set_dimension() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) set_extended_loop() (pyrosetta.rosetta.protocols.LoopRebuild method) set_indent() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method) set_input_pose() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) set_ios_hook() (pyrosetta.rosetta.basic.Tracer method) set_logging_handler() (in module pyrosetta.logging_support) set_mpi_rank() (pyrosetta.rosetta.utility.SimulateMPI method) set_native_pose() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) set_new_final_stream() (pyrosetta.rosetta.basic.Tracer method) set_next_correspondence() (pyrosetta.rosetta.utility.subset_mapping method) set_random_loop_flag() (pyrosetta.rosetta.protocols.LoopRebuild method) set_source_size() (pyrosetta.rosetta.utility.subset_mapping method) set_svn_version_and_url() (in module pyrosetta.rosetta.core) set_type() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) short_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) show() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) show_time() (in module pyrosetta.rosetta.basic) sign() (in module pyrosetta.rosetta.numeric) (in module pyrosetta.rosetta.ObjexxFCL) simulate_mpi() (pyrosetta.rosetta.utility.SimulateMPI method) simulate_mpi_message_type (class in pyrosetta.rosetta.utility) SimulateMPI (class in pyrosetta.rosetta.utility) sin_cos_range() (in module pyrosetta.rosetta.numeric) size() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method)

sized() (in module pyrosetta.rosetta.ObjexxFCL) slurp() (in module pyrosetta.rosetta.utility) source_id_is_mapped() (pyrosetta.rosetta.utility.subset_mapping method) source_size() (pyrosetta.rosetta.utility.subset_mapping method) space() (in module pyrosetta.rosetta.ObjexxFCL) split() (in module pyrosetta.rosetta.utility) split_by_newlines() (in module pyrosetta.rosetta.utility) split_to_list() (in module pyrosetta.rosetta.utility) split_to_set() (in module pyrosetta.rosetta.utility) split_whitespace() (in module pyrosetta.rosetta.utility) square() (in module pyrosetta.rosetta.ObjexxFCL) Star (class in pyrosetta.rosetta.ObjexxFCL) start() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) start_doc() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method) start_list() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method) start_map() (pyrosetta.rosetta.basic.Emitter method) (pyrosetta.rosetta.basic.JsonEmitter method) (pyrosetta.rosetta.basic.YamlEmitter method) startswith() (in module pyrosetta.rosetta.utility) StaticIndexRange (class in pyrosetta.rosetta.ObjexxFCL) str_dn() (in module pyrosetta.rosetta.ObjexxFCL) str_dncase() (in module pyrosetta.rosetta.ObjexxFCL) str_up() (in module pyrosetta.rosetta.ObjexxFCL) str_upcase() (in module pyrosetta.rosetta.ObjexxFCL) string2float() (in module pyrosetta.rosetta.utility) string2int() (in module pyrosetta.rosetta.utility) string2Real() (in module pyrosetta.rosetta.utility) string2Size() (in module pyrosetta.rosetta.utility) string2uint() (in module pyrosetta.rosetta.utility) string_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) string_split() (in module pyrosetta.rosetta.utility) string_split_multi_delim() (in module pyrosetta.rosetta.utility) string_split_simple() (in module pyrosetta.rosetta.utility) string_to_sha1() (in module pyrosetta.rosetta.utility) strip() (in module pyrosetta.rosetta.ObjexxFCL) (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) strip_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) stripped() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) stripped_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) subset_mapping (class in pyrosetta.rosetta.utility) subtract_degree_angles() (in module pyrosetta.rosetta.basic) subtract_radian_angles() (in module pyrosetta.rosetta.basic) super_mute() (pyrosetta.rosetta.basic.Tracer method) suppress_CSI_codes() (pyrosetta.rosetta.utility.CSI_Sequence method) swap() (in module pyrosetta.rosetta.ObjexxFCL) (in module pyrosetta.rosetta.std) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) swap4_aligned() (in module pyrosetta.rosetta.utility) swap_no_notify() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) sys_sleep() (in module pyrosetta.rosetta.utility)

T

T() (in module pyrosetta.rosetta.basic) t_str() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) tail() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) test_move() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) timestamp() (in module pyrosetta.rosetta.utility) timestamp_short() (in module pyrosetta.rosetta.utility) to_string() (in module pyrosetta.rosetta.utility) total_counts() (pyrosetta.rosetta.numeric.MultiDimensionalHistogram method) Tracer (class in pyrosetta.rosetta.basic) tracer_options() (pyrosetta.rosetta.basic.Tracer method) TracerManager (class in pyrosetta.rosetta.basic) TracerOptions (class in pyrosetta.rosetta.basic) TracerPriority (class in pyrosetta.rosetta.basic) translate_pose() (in module pyrosetta.toolbox.numpy_utils) transpose_product() (in module pyrosetta.rosetta.numeric) trim() (in module pyrosetta.rosetta.ObjexxFCL) (in module pyrosetta.rosetta.utility) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method)

trim_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) trimmed() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) trimmed_compare() (in module pyrosetta.rosetta.utility) trimmed_whitespace() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) trimmed_whitespace_range() (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) type() (pyrosetta.rosetta.protocols.LoopRebuild method) (pyrosetta.rosetta.protocols.LoopRefine method) type_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method)

U

u() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) u_initialized() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) u_no_notify() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) ubyte (class in pyrosetta.rosetta.ObjexxFCL) uint_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) ulong_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) unbounded() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) unbounded_value() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method) unique() (in module pyrosetta.rosetta.ObjexxFCL) uniqued() (in module pyrosetta.rosetta.ObjexxFCL) unsigned_periodic_range() (in module pyrosetta.rosetta.basic)

upcase() (in module pyrosetta.rosetta.ObjexxFCL) update() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.Observer method) (pyrosetta.rosetta.ObjexxFCL.ObserverMulti method) (pyrosetta.rosetta.ObjexxFCL.ObserverSingle method) upper() (in module pyrosetta.rosetta.utility) uppercase() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) uppercased() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Cstring method) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) urs_norm4() (in module pyrosetta.rosetta.numeric) urs_R2ang() (in module pyrosetta.rosetta.numeric) ushort_of() (in module pyrosetta.rosetta.ObjexxFCL) (pyrosetta.rosetta.ObjexxFCL.Fstring method) (pyrosetta.rosetta.ObjexxFCL.Fsubstring method) uz() (pyrosetta.rosetta.ObjexxFCL.DynamicIndexRange method) (pyrosetta.rosetta.ObjexxFCL.IndexRange method) (pyrosetta.rosetta.ObjexxFCL.StaticIndexRange method)

V

value() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method)

Vector1() (in module pyrosetta) vector1_indices() (in module pyrosetta.util) visible() (pyrosetta.rosetta.basic.Tracer method)

W

W128_T (class in pyrosetta.rosetta) Warning() (in module pyrosetta.rosetta.basic) was_init_called() (in module pyrosetta.rosetta.basic)

write() (pyrosetta.rosetta.basic.PyTracer method) (pyrosetta.rosetta.basic.Report method) (pyrosetta.rosetta.basic.Tracer method) write_metric_value() (in module pyrosetta.rosetta.basic)

Y

YamlEmitter (class in pyrosetta.rosetta.basic)

Z

z_rotation_matrix() (in module pyrosetta.rosetta.numeric) z_rotation_matrix_degrees() (in module pyrosetta.rosetta.numeric) zvalue() (pyrosetta.rosetta.ObjexxFCL.Dimension method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpression method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCon method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionCube method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionDiv method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMax method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMin method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionMul method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionPow method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionRef method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSquare method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSub method) (pyrosetta.rosetta.ObjexxFCL.DimensionExpressionSum method)