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S
S
(in
AtomicOrbitalTypes
)
set_input_pose()
(in
MotifGraftMover
)
setup_for_scoring_for_residue()
(in
MembraneCbetaEnergy
)
S
(in
GasteigerAtomTypeData
)
set_input_pose()
(in
MotifDnaPacker
)
setup_for_scoring_for_residue()
(in
MembraneCenPairEnergy
)
s()
(in
OneGaussianScattering
)
set_input_pose()
(in
CompositionMover
)
setup_for_scoring_for_residue()
(in
MembraneEnvEnergy
)
s()
(in
Value
)
set_input_pose()
(in
CycleMover
)
setup_for_scoring_for_residue()
(in
MembraneEnvSmoothEnergy
)
s1()
(in
StrandPairing
)
set_input_pose()
(in
CyclicMover
)
setup_for_scoring_for_residue()
(in
NMerPSSMEnergy
)
s1_end()
(in
Hairpin
)
set_input_pose()
(in
DsspMover
)
setup_for_scoring_for_residue()
(in
NMerRefEnergy
)
s1_start()
(in
Hairpin
)
set_input_pose()
(in
FilterMover
)
setup_for_scoring_for_residue()
(in
NMerSVMEnergy
)
s2()
(in
StrandPairing
)
set_input_pose()
(in
FilterReporterMover
)
setup_for_scoring_for_residue()
(in
OmegaTetherEnergy
)
s2()
(in
PhiPsiTalosIO
)
set_input_pose()
(in
IfMover
)
setup_for_scoring_for_residue()
(in
OneBodyEnergy
)
s2_end()
(in
Hairpin
)
set_input_pose()
(in
IteratedConvergenceMover
)
setup_for_scoring_for_residue()
(in
P_AA_Energy
)
s2_start()
(in
Hairpin
)
set_input_pose()
(in
JumpOutMover
)
setup_for_scoring_for_residue()
(in
P_AA_pp_Energy
)
s2d()
(in
subset_mapping
)
set_input_pose()
(in
MCShowMover
)
setup_for_scoring_for_residue()
(in
PairEnergy
)
S_p_sp3
(in
rosetta.core.chemical.orbitals
)
set_input_pose()
(in
MonteCarloUtil
)
setup_for_scoring_for_residue()
(in
PeptideBondEnergy
)
S_p_sp3
(in
rosetta.core.chemical.orbitals._core_chemical_orbitals_
)
set_input_pose()
(in
MoveMapMover
)
setup_for_scoring_for_residue()
(in
PoissonBoltzmannEnergy
)
S_p_sp3
(in
orbital_type_enum
)
set_input_pose()
(in
Mover
)
setup_for_scoring_for_residue()
(in
ProClosureEnergy
)
S_p_sp3
(in
OrbitalsStatistics
)
set_input_pose()
(in
MoverApplyingMover
)
setup_for_scoring_for_residue()
(in
Rama2BOffsetEnergy
)
S_p_sp3
(in
orbital_type_name
)
set_input_pose()
(in
MoverContainer
)
setup_for_scoring_for_residue()
(in
RamachandranEnergy
)
sa
(in
ScoreType
)
set_input_pose()
(in
MoverForPoseList
)
setup_for_scoring_for_residue()
(in
RamachandranEnergy2B
)
sa
(in
rosetta.core.scoring._core_scoring_
)
set_input_pose()
(in
NullMover
)
setup_for_scoring_for_residue()
(in
ReferenceEnergy
)
sa
(in
rosetta.core.scoring
)
set_input_pose()
(in
PDBDumpMover
)
setup_for_scoring_for_residue()
(in
ReferenceEnergyNoncanonical
)
sa
(in
rosetta
)
set_input_pose()
(in
ProfilerMover
)
setup_for_scoring_for_residue()
(in
SequenceDependentRefEnergy
)
sa()
(in
VallResidue
)
set_input_pose()
(in
PyMolMover
)
setup_for_scoring_for_residue()
(in
ShortRangeTwoBodyEnergy
)
SA_Energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RampingMover
)
setup_for_scoring_for_residue()
(in
SmoothCenPairEnergy
)
SA_EnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RandomMover
)
setup_for_scoring_for_residue()
(in
SmoothEnvEnergy
)
SA_EnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RepeatMover
)
setup_for_scoring_for_residue()
(in
SuckerEnergy
)
SA_EnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
SequenceMover
)
setup_for_scoring_for_residue()
(in
SymmetricLigandEnergy
)
SA_EnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
StructureRestrictor
)
setup_for_scoring_for_residue()
(in
TwoBodyEnergy
)
SA_EnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
TrialMover
)
setup_for_scoring_for_residue()
(in
UnfoldedStateEnergy
)
sa_faraggi_max()
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
set_input_pose()
(in
VectorPoseMover
)
setup_for_scoring_for_residue()
(in
WaterAdductHBondEnergy
)
sa_norm()
(in
VallResidue
)
set_input_pose()
(in
WhileMover
)
setup_for_scoring_for_residue()
(in
WaterAdductIntraEnergy
)
sa_weight()
(in
HolesParams
)
set_input_pose()
(in
StructAvrgMover
)
setup_for_scoring_for_residue()
(in
YHHPlanarityEnergy
)
safe_read()
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
set_input_pose()
(in
NcbbDockDesignProtocol
)
setup_for_scoring_for_residue()
(in
pHEnergy
)
safe_secstruct()
(in
JumpSample
)
set_input_pose()
(in
OopCreatorMover
)
setup_for_scoring_for_residue()
(in
SugarBackboneEnergy
)
safe_secstruct()
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_input_pose()
(in
OopDockDesignProtocol
)
setup_for_scoring_for_residue()
(in
DFIRE_Energy
)
safe_set_extended_torsions_and_idealize_loops()
(in
rosetta.protocols.loops._protocols_loops_
)
set_input_pose()
(in
CartesianNormalModeMover
)
setup_for_scoring_for_residue()
(in
NVscore
)
safe_write()
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
set_input_pose()
(in
NormalModeMinimizer
)
setup_for_scoring_for_residue()
(in
OrbitalsScore
)
safely_append_polymer_residue_after_seqpos()
(in
Conformation
)
set_input_pose()
(in
NormalModeRelaxMover
)
setup_for_scoring_for_residue()
(in
RNA_BulgeEnergy
)
safely_append_polymer_residue_after_seqpos()
(in
ProtectedConformation
)
set_input_pose()
(in
TorsionNormalModeMover
)
setup_for_scoring_for_residue()
(in
RNA_FullAtomStackingEnergy
)
safely_prepare_statement()
(in
rosetta.basic.database._basic_database_
)
set_input_pose()
(in
SetupPoissonBoltzmannPotential
)
setup_for_scoring_for_residue()
(in
RNA_FullAtomVDW_BasePhosphate
)
safely_prepend_polymer_residue_before_seqpos()
(in
Conformation
)
set_input_pose()
(in
AddChainBreak
)
setup_for_scoring_for_residue()
(in
RNA_JR_SuiteEnergy
)
safely_prepend_polymer_residue_before_seqpos()
(in
ProtectedConformation
)
set_input_pose()
(in
AddSidechainConstraintsToHotspots
)
setup_for_scoring_for_residue()
(in
RNA_LJ_BaseEnergy
)
safely_read_from_database()
(in
rosetta.basic.database._basic_database_
)
set_input_pose()
(in
BackrubDDMover
)
setup_for_scoring_for_residue()
(in
RNA_Mg_Energy
)
safely_write_to_database()
(in
rosetta.basic.database._basic_database_
)
set_input_pose()
(in
BestHotspotCstMover
)
setup_for_scoring_for_residue()
(in
RNA_PairwiseLowResolutionEnergy
)
SaltBridgeCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_input_pose()
(in
BuildAlaPose
)
setup_for_scoring_for_residue()
(in
RNA_SugarCloseEnergy
)
SaltBridgeCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_input_pose()
(in
DesignMinimizeHbonds
)
setup_for_scoring_for_residue()
(in
RNA_SuiteEnergy
)
SaltBridgeCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_input_pose()
(in
DisulfideMover
)
setup_for_scoring_for_residue()
(in
RNA_TorsionEnergy
)
SaltBridgeFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_input_pose()
(in
DockAndRetrieveSidechains
)
setup_for_scoring_for_residue()
(in
RNA_VDW_Energy
)
SaltBridgeFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_input_pose()
(in
DockWithHotspotMover
)
setup_for_scoring_for_residue()
(in
StackElecEnergy
)
SaltBridgeFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_input_pose()
(in
FavorNativeResiduePreCycle
)
setup_for_scoring_for_residue()
(in
RNA_DataBackboneEnergy
)
SaltBridgeFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_input_pose()
(in
FavorNonNativeResiduePreCycle
)
setup_for_scoring_for_residue()
(in
symEnergy
)
SaltBridgeFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_input_pose()
(in
HotspotDisjointedFoldTreeMover
)
setup_for_scoring_for_residue()
(in
AACompositionEnergy
)
SaltBridgeFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_input_pose()
(in
HotspotHasherMover
)
setup_for_scoring_for_residue()
(in
InterchainEnvEnergy
)
same()
(in
MinimalRotamer
)
set_input_pose()
(in
InterfaceRecapitulationMover
)
setup_for_scoring_for_residue()
(in
InterchainPairEnergy
)
same_chain()
(in
FragmentCandidate
)
set_input_pose()
(in
LoopFinder
)
setup_for_scoring_for_residue()
(in
SpecialRotamerEnergy
)
same_edge()
(in
Edge
)
set_input_pose()
(in
LoopLengthChange
)
setup_for_scoring_for_residue_pair()
(in
CarbonHBondEnergy
)
same_edge()
(in
EdgeBase
)
set_input_pose()
(in
LoopMoverFromCommandLine
)
setup_for_scoring_for_residue_pair()
(in
ConstraintsEnergy
)
same_ignoring_spaces()
(in
rosetta.utility._utility_
)
set_input_pose()
(in
LoopOver
)
setup_for_scoring_for_residue_pair()
(in
FullatomCustomPairDistanceEnergy
)
same_pose()
(in
rosetta.protocols.denovo_design._protocols_denovo_design_
)
set_input_pose()
(in
LoopRemodel
)
setup_for_scoring_for_residue_pair()
(in
CentroidDisulfideEnergy
)
same_residue_type()
(in
MinimalRotamer
)
set_input_pose()
(in
MapHotspot
)
setup_for_scoring_for_residue_pair()
(in
DisulfideMatchingEnergy
)
same_type_as_me()
(in
Conformation
)
set_input_pose()
(in
PatchdockTransform
)
setup_for_scoring_for_residue_pair()
(in
FullatomDisulfideEnergy
)
same_type_as_me()
(in
SymmetricConformation
)
set_input_pose()
(in
PeptideStapleDesignMover
)
setup_for_scoring_for_residue_pair()
(in
DNATorsionEnergy
)
same_type_as_me()
(in
Energies
)
set_input_pose()
(in
PlaceOnLoop
)
setup_for_scoring_for_residue_pair()
(in
FA_ElecEnergy
)
same_type_as_me()
(in
SurfaceEnergies
)
set_input_pose()
(in
PlaceSimultaneouslyMover
)
setup_for_scoring_for_residue_pair()
(in
FA_ElecEnergyAroAll
)
same_type_as_me()
(in
SymmetricEnergies
)
set_input_pose()
(in
PlaceStubMover
)
setup_for_scoring_for_residue_pair()
(in
FA_ElecEnergyAroAro
)
same_type_as_me()
(in
ProtectedConformation
)
set_input_pose()
(in
PlacementAuctionMover
)
setup_for_scoring_for_residue_pair()
(in
FA_GrpElecEnergy
)
SameChiBinComboGrouper
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
PlacementMinimizationMover
)
setup_for_scoring_for_residue_pair()
(in
RNA_FA_ElecEnergy
)
SameChiBinComboGrouperAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
PrepackMover
)
setup_for_scoring_for_residue_pair()
(in
ElecDensAllAtomCenEnergy
)
SameChiBinComboGrouperCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
ProteinInterfaceMultiStateDesignMover
)
setup_for_scoring_for_residue_pair()
(in
ElecDensCenEnergy
)
SameRotamerComboGrouper
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
RandomMutation
)
setup_for_scoring_for_residue_pair()
(in
ElecDensEnergy
)
SameRotamerComboGrouperAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
RepackMinimize
)
setup_for_scoring_for_residue_pair()
(in
FastDensEnergy
)
SameRotamerComboGrouperCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
SaveAndRetrieveSidechains
)
setup_for_scoring_for_residue_pair()
(in
PattersonCorrEnergy
)
SameSequenceAndDSPositionGrouper
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
SetAtomTree
)
setup_for_scoring_for_residue_pair()
(in
ElecDensAtomwiseEnergy
)
SameSequenceAndDSPositionGrouperAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
SetTemperatureFactor
)
setup_for_scoring_for_residue_pair()
(in
AnalyticEtableEnergy
)
SameSequenceAndDSPositionGrouperCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
SetupHotspotConstraintsLoopsMover
)
setup_for_scoring_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
SameSequenceGrouper
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
SetupHotspotConstraintsMover
)
setup_for_scoring_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
SameSequenceGrouperAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
ShoveResidueMover
)
setup_for_scoring_for_residue_pair()
(in
TableLookupEtableEnergy
)
SameSequenceGrouperCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_input_pose()
(in
SpinMover
)
setup_for_scoring_for_residue_pair()
(in
ContextDependentGeometricSolEnergy
)
SameSign
(in
FunctionSign
)
set_input_pose()
(in
SubroutineMover
)
setup_for_scoring_for_residue_pair()
(in
ContextIndependentGeometricSolEnergy
)
SameSign
(in
RDFBase
)
set_input_pose()
(in
TaskAwareCsts
)
setup_for_scoring_for_residue_pair()
(in
OccludedHbondSolEnergy
)
SameStrand
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_input_pose()
(in
TopologyBrokerMover
)
setup_for_scoring_for_residue_pair()
(in
HackAroEnergy
)
SameStrandAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_input_pose()
(in
TryRotamers
)
setup_for_scoring_for_residue_pair()
(in
HBondEnergy
)
SameStrandCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_input_pose()
(in
VLB
)
setup_for_scoring_for_residue_pair()
(in
DDPscore
)
SAMPLE
(in
rosetta.core.pose.full_model_info
)
set_input_pose()
(in
AutoRBMover
)
setup_for_scoring_for_residue_pair()
(in
FaMPSolvEnergy
)
SAMPLE
(in
FullModelParameterType
)
set_input_pose()
(in
FragInsertAndAlignMover
)
setup_for_scoring_for_residue_pair()
(in
MPPairEnergy
)
SAMPLE
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
set_input_pose()
(in
GaussianRBSegmentMover
)
setup_for_scoring_for_residue_pair()
(in
CartesianBondedEnergy
)
sample_all_conformers()
(in
RingConformationMover
)
set_input_pose()
(in
HelicalGaussianMover
)
setup_for_scoring_for_residue_pair()
(in
CenHBEnergy
)
sample_all_rotations_at_jump()
(in
rosetta.protocols.toolbox.sample_around._protocols_toolbox_sample_around_
)
set_input_pose()
(in
IdealizeHelicesMover
)
setup_for_scoring_for_residue_pair()
(in
CenPairEnergy
)
SAMPLE_APPLIER
(in
rosetta.protocols.stepwise.screener
)
set_input_pose()
(in
MakeStarTopologyMover
)
setup_for_scoring_for_residue_pair()
(in
CenRotPairEnergy
)
SAMPLE_APPLIER
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_input_pose()
(in
OptimizeThreadingMover
)
setup_for_scoring_for_residue_pair()
(in
ContextDependentLRTwoBodyEnergy
)
SAMPLE_APPLIER
(in
StepWiseScreenerType
)
set_input_pose()
(in
RBSegmentMover
)
setup_for_scoring_for_residue_pair()
(in
ContextDependentTwoBodyEnergy
)
SAMPLE_APPLIER_WITH_RESIDUE_LIST
(in
rosetta.protocols.stepwise.screener
)
set_input_pose()
(in
RBSegmentRelax
)
setup_for_scoring_for_residue_pair()
(in
ContextIndependentLRTwoBodyEnergy
)
SAMPLE_APPLIER_WITH_RESIDUE_LIST
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_input_pose()
(in
SequenceShiftMover
)
setup_for_scoring_for_residue_pair()
(in
ContextIndependentTwoBodyEnergy
)
SAMPLE_APPLIER_WITH_RESIDUE_LIST
(in
StepWiseScreenerType
)
set_input_pose()
(in
StrandTwistingMover
)
setup_for_scoring_for_residue_pair()
(in
CustomAtomPairEnergy
)
sample_around
(in
rosetta.protocols.toolbox
)
set_input_pose()
(in
AtomCoordinateCstMover
)
setup_for_scoring_for_residue_pair()
(in
DNA_BaseEnergy
)
sample_beta()
(in
StepWiseProteinModelerOptions
)
set_input_pose()
(in
CentroidRelax
)
setup_for_scoring_for_residue_pair()
(in
Fa_MbsolvEnergy
)
sample_both_sugar_base_rotamer()
(in
StepWiseWorkingParameters
)
set_input_pose()
(in
ClassicRelax
)
setup_for_scoring_for_residue_pair()
(in
GaussianOverlapEnergy
)
sample_cis_peptide_bond
(in
perturber_effect
)
set_input_pose()
(in
FastRelax
)
setup_for_scoring_for_residue_pair()
(in
GenBornEnergy
)
sample_cis_peptide_bond
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
set_input_pose()
(in
LocalRelax
)
setup_for_scoring_for_residue_pair()
(in
GoapEnergy
)
sample_cis_peptide_bond
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
set_input_pose()
(in
MiniRelax
)
setup_for_scoring_for_residue_pair()
(in
HybridVDW_Energy
)
sample_five_prime_phosphate()
(in
RNA_ResidueLevelTask
)
set_input_pose()
(in
RelaxProtocolBase
)
setup_for_scoring_for_residue_pair()
(in
LK_BallEnergy
)
sample_layer_lines_from_bins()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
set_input_pose()
(in
MPFastRelaxMover
)
setup_for_scoring_for_residue_pair()
(in
LK_PolarNonPolarEnergy
)
sample_level()
(in
RotamerExplosion
)
set_input_pose()
(in
MembraneCenterPerturbationMover
)
setup_for_scoring_for_residue_pair()
(in
LK_hack
)
sample_level()
(in
SampleStrategyData
)
set_input_pose()
(in
MembraneNormalPerturbationMover
)
setup_for_scoring_for_residue_pair()
(in
LongRangeTwoBodyEnergy
)
sample_loops()
(in
FASelectSlidingWindowLoopClosure
)
set_input_pose()
(in
MovePoseToMembraneCenterMover
)
setup_for_scoring_for_residue_pair()
(in
MMBondAngleEnergy
)
sample_loops()
(in
SlidingWindowLoopClosure
)
set_input_pose()
(in
RigidBodyDeterministicSpinMover
)
setup_for_scoring_for_residue_pair()
(in
MMBondLengthEnergy
)
sample_loops()
(in
WidthFirstSlidingWindowLoopClosure
)
set_input_pose()
(in
RigidBodyDofPerturbMover
)
setup_for_scoring_for_residue_pair()
(in
MMLJEnergyInter
)
sample_near_nucleoside_torsion()
(in
RNA_TorsionMover
)
set_input_pose()
(in
RigidBodyDofRandomTransMover
)
setup_for_scoring_for_residue_pair()
(in
MMLJEnergyIntra
)
sample_near_suite_torsion()
(in
RNA_TorsionMover
)
set_input_pose()
(in
RigidBodyDofRandomizeMover
)
setup_for_scoring_for_residue_pair()
(in
MMTorsionEnergy
)
sample_o2prime_hydrogen()
(in
O2PrimePacker
)
set_input_pose()
(in
RigidBodyDofSeqPerturbMover
)
setup_for_scoring_for_residue_pair()
(in
MembraneCenPairEnergy
)
sample_ONLY_multiple_virtual_sugar()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
RigidBodyDofSeqRandomizeMover
)
setup_for_scoring_for_residue_pair()
(in
PairEnergy
)
sample_phosphates()
(in
MultiPhosphateSampler
)
set_input_pose()
(in
RigidBodyDofSeqTransMover
)
setup_for_scoring_for_residue_pair()
(in
PeptideBondEnergy
)
sample_proton_chi()
(in
ResidueLevelTask
)
set_input_pose()
(in
RigidBodyDofTransMover
)
setup_for_scoring_for_residue_pair()
(in
PoissonBoltzmannEnergy
)
sample_proton_chi()
(in
ResidueLevelTask_
)
set_input_pose()
(in
RigidBodyMotionMover
)
setup_for_scoring_for_residue_pair()
(in
ProClosureEnergy
)
sample_res()
(in
FullModelInfo
)
set_input_pose()
(in
RigidBodyMover
)
setup_for_scoring_for_residue_pair()
(in
Rama2BOffsetEnergy
)
sample_rna_chi()
(in
RNA_ResidueLevelTask
)
set_input_pose()
(in
RigidBodyPerturbMover
)
setup_for_scoring_for_residue_pair()
(in
RamachandranEnergy2B
)
sample_strategy_for_chi()
(in
BuildSet
)
set_input_pose()
(in
RigidBodyPerturbNoCenterMover
)
setup_for_scoring_for_residue_pair()
(in
ShortRangeTwoBodyEnergy
)
sample_three_prime_phosphate()
(in
RNA_ResidueLevelTask
)
set_input_pose()
(in
RigidBodyPerturbRandomJumpMover
)
setup_for_scoring_for_residue_pair()
(in
SmoothCenPairEnergy
)
sample_types()
(in
GreedyOptMutationMover
)
set_input_pose()
(in
RigidBodyRandomizeMover
)
setup_for_scoring_for_residue_pair()
(in
SuckerEnergy
)
sample_types()
(in
ParetoOptMutationMover
)
set_input_pose()
(in
RigidBodySpinMover
)
setup_for_scoring_for_residue_pair()
(in
TwoBodyEnergy
)
sample_types()
(in
PointMutationCalculator
)
set_input_pose()
(in
RigidBodyTransMover
)
setup_for_scoring_for_residue_pair()
(in
WaterAdductHBondEnergy
)
sample_types()
(in
MatDesGreedyOptMutationMover
)
set_input_pose()
(in
RollMover
)
setup_for_scoring_for_residue_pair()
(in
DFIRE_Energy
)
sample_types()
(in
MatDesPointMutationCalculator
)
set_input_pose()
(in
RotateJumpAxisMover
)
setup_for_scoring_for_residue_pair()
(in
OrbitalsScore
)
sample_types()
(in
GenericMonteCarloMover
)
set_input_pose()
(in
UniformRigidBodyCM
)
setup_for_scoring_for_residue_pair()
(in
RNA_FullAtomStackingEnergy
)
sample_zero_probs_at()
(in
ResidueProbDesignOperation
)
set_input_pose()
(in
UniformRigidBodyMover
)
setup_for_scoring_for_residue_pair()
(in
RNA_JR_SuiteEnergy
)
SampleApplier
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_input_pose()
(in
UniformSphereTransMover
)
setup_for_scoring_for_residue_pair()
(in
RNA_LJ_BaseEnergy
)
SampleApplierAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_input_pose()
(in
WholeBodyRotationMover
)
setup_for_scoring_for_residue_pair()
(in
RNA_Mg_Energy
)
SampleApplierCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_input_pose()
(in
WholeBodyTranslationMover
)
setup_for_scoring_for_residue_pair()
(in
RNA_PairwiseLowResolutionEnergy
)
sampler
(in
rosetta.protocols.stepwise
)
set_input_pose()
(in
AdditionalOutputWrapper
)
setup_for_scoring_for_residue_pair()
(in
RNA_SuiteEnergy
)
sampler_assert_no_virt_sugar_sampling()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
MultipleOutputWrapper
)
setup_for_scoring_for_residue_pair()
(in
RNA_TorsionEnergy
)
sampler_extra_beta_rotamer()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
MultiplePoseMover
)
setup_for_scoring_for_residue_pair()
(in
RNA_VDW_Energy
)
sampler_extra_epsilon_rotamer()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
ParsedProtocol
)
setup_for_scoring_for_residue_pair()
(in
StackElecEnergy
)
sampler_include_torsion_value_in_tag()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
SavePoseMover
)
setup_for_scoring_for_residue_pair()
(in
RNA_DataBackboneEnergy
)
sampler_max_centroid_distance()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
RotamerRecoveryMover
)
setup_for_scoring_for_residue_pair()
(in
symEnergy
)
sampler_max_centroid_distance()
(in
StepWiseMonteCarloOptions
)
set_input_pose()
(in
CAcstGenerator
)
setup_for_scoring_for_residue_pair()
(in
InterchainPairEnergy
)
sampler_num_pose_kept()
(in
StepWiseBasicOptions
)
set_input_pose()
(in
CloseFold
)
setup_form_factors()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
sampler_perform_phosphate_pack()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
CoordinateCst
)
setup_from_ConnollySurface()
(in
NonPlaidFingerprint
)
sampler_perform_phosphate_pack()
(in
StepWiseMonteCarloOptions
)
set_input_pose()
(in
DefineMovableLoops
)
setup_from_eggshell_pdb_file()
(in
NonPlaidFingerprint
)
sampler_silent_file()
(in
StepWiseBasicOptions
)
set_input_pose()
(in
GrowPeptides
)
setup_from_eggshell_triplet_file()
(in
NonPlaidFingerprint
)
sampler_try_sugar_instantiation()
(in
StepWiseRNA_ModelerOptions
)
set_input_pose()
(in
SeedFoldTree
)
setup_from_EggshellGrid()
(in
NonPlaidFingerprint
)
samplers
(in
rosetta.protocols.loop_modeling
)
set_input_pose()
(in
SeedSetupMover
)
setup_from_espGrid()
(in
NonPlaidFingerprint
)
samples()
(in
PerturbBundleOptions
)
set_input_pose()
(in
SegmentHybridizer
)
setup_from_kill_hairpins_file()
(in
SS_Killhairpins_Info
)
samples()
(in
DunbrackSCSampler
)
set_input_pose()
(in
SwapSegment
)
setup_from_PlaidFingerprint()
(in
NonPlaidFingerprint
)
samples()
(in
ProteinSCSampler
)
set_input_pose()
(in
EvaluatedTrialMover
)
setup_from_PocketGrid()
(in
NonPlaidFingerprint
)
SampleStrategyData
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
set_input_pose()
(in
AddCavitiesMover
)
setup_from_PocketGrid_and_known_ligand()
(in
NonPlaidFingerprint
)
SampleStrategyDataAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
set_input_pose()
(in
AddChainMover
)
setup_from_PocketGrid_using_bound_ligand()
(in
NonPlaidFingerprint
)
SampleStrategyDataCAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
set_input_pose()
(in
AddConstraintsToCurrentConformationMover
)
setup_from_psipred()
(in
SS_Killhairpins_Info
)
sampling
(in
rosetta.basic
)
set_input_pose()
(in
AddJobPairData
)
setup_from_rotamer_dots()
(in
InvRotamerDots
)
sampling_fold_tree()
(in
KinematicControl
)
set_input_pose()
(in
AlignChainMover
)
setup_fullatom_constraints()
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
sampling_id_for_current_rotamer()
(in
ContinuousRotamerSet
)
set_input_pose()
(in
BBConRotMover
)
setup_hash_maps()
(in
LoopHashLibrary
)
sampling_protocol()
(in
AbrelaxMover
)
set_input_pose()
(in
BBG8T3AMover
)
setup_icoor_reassignments_from_commandline()
(in
rosetta.core.chemical._core_chemical_
)
sampling_protocol()
(in
KinematicTaskControl
)
set_input_pose()
(in
BBGaussianMover
)
setup_IG_res_res_weights()
(in
rosetta.core.pack._core_pack_
)
sampling_temperature()
(in
SidechainMover
)
set_input_pose()
(in
BackboneMover
)
setup_include_patches()
(in
SilentFileData
)
sampLoc()
(in
SO3coeffs
)
set_input_pose()
(in
BoltzmannRotamerMover
)
setup_info_for_mg_calculation()
(in
RNA_Mg_KnowledgeBasedPotential
)
SandwichFeatures
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
ChainSplitMover
)
setup_iterations()
(in
SimAnnealerBase
)
SandwichFeaturesAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
ChangeAndResetFoldTreeMover
)
setup_jumps()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
SandwichFeaturesCAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
ClearConstraintsMover
)
setup_kic_config()
(in
LoopModeler
)
SandwichFeaturesCreator
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
CombinePoseMover
)
setup_kic_with_fragments_config()
(in
LoopModeler
)
SandwichFeaturesCreatorAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
ConsensusDesignMover
)
setup_killhairpins()
(in
SS_Killhairpins_Info
)
SandwichFeaturesCreatorCAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
ConstrainToIdealMover
)
setup_LH_A_foldtree()
(in
rosetta.protocols.antibody._protocols_antibody_
)
SandwichFragment
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
ConstraintSetMover
)
setup_list()
(in
BackboneMover
)
SandwichFragmentAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
ContingentAcceptMover
)
setup_list()
(in
ShearMover
)
SandwichFragmentCAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_input_pose()
(in
CopyDofMover
)
setup_list()
(in
SmallMover
)
SaneDockingProtocol
(in
rosetta.protocols.docking.stateless._protocols_docking_stateless_
)
set_input_pose()
(in
CoupledMover
)
setup_matching_atoms_with_given_names()
(in
rosetta.core.scoring._core_scoring_
)
SaneDockingProtocolAP
(in
rosetta.protocols.docking.stateless._protocols_docking_stateless_
)
set_input_pose()
(in
CutChainMover
)
setup_matching_CA_atoms()
(in
rosetta.core.scoring._core_scoring_
)
SaneDockingProtocolCAP
(in
rosetta.protocols.docking.stateless._protocols_docking_stateless_
)
set_input_pose()
(in
CyclizationMover
)
setup_matching_heavy_atoms()
(in
rosetta.core.scoring._core_scoring_
)
SaneMinMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
DME_FilterMover
)
setup_matching_protein_backbone_heavy_atoms()
(in
rosetta.core.scoring._core_scoring_
)
SaneMinMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
DeleteChainsMover
)
setup_membrane_topology()
(in
rosetta.protocols.relax._protocols_relax_
)
SaneMinMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
DesignRepackMover
)
setup_membrane_virtual()
(in
AddMembraneMover
)
SaneMinMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
DisulfideInsertionMover
)
setup_membrane_virtual()
(in
SymmetricAddMembraneMover
)
SaneMinMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
DumpPdb
)
setup_min_map()
(in
Atom
)
SaneMinMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
EnergyCutRotamerTrialsMinMover
)
setup_min_map()
(in
BondedAtom
)
sanity_check()
(in
SymmData
)
set_input_pose()
(in
EnergyCutRotamerTrialsMover
)
setup_min_map()
(in
JumpAtom
)
sanity_check()
(in
MotifHash
)
set_input_pose()
(in
ExtendedPoseMover
)
setup_modeler_options()
(in
StepWiseMonteCarloOptions
)
sanity_check()
(in
XformScore
)
set_input_pose()
(in
FavorSequenceProfile
)
setup_movemap()
(in
LoopMover_Refine_CCD
)
sanity_check()
(in
xyzStripeHash
)
set_input_pose()
(in
FavorSymmetricSequence
)
setup_movemap()
(in
AllowInsert
)
sanity_check()
(in
xyzStripeHashWithMeta_T_float_T
)
set_input_pose()
(in
FindConsensusSequence
)
setup_mover()
(in
MSDMover
)
sasa
(in
rosetta.core.scoring
)
set_input_pose()
(in
ForceDisulfidesMover
)
setup_native_pose()
(in
StepWiseRNA_PoseSetup
)
sasa()
(in
HelicalFragment
)
set_input_pose()
(in
GenericMonteCarloMover
)
SETUP_NBLIST
(in
rosetta.basic
)
sasa_core()
(in
LayerDesignOperation
)
set_input_pose()
(in
GreenPacker
)
SETUP_NBLIST
(in
ProfTag
)
sasa_core()
(in
SelectResiduesByLayer
)
set_input_pose()
(in
LoadPDBMover
)
SETUP_NBLIST
(in
rosetta.basic._basic_
)
sasa_scores
(in
rosetta.protocols
)
set_input_pose()
(in
LoadUnboundRotMover
)
setup_options_for_VDW_bin_checker()
(in
StepWiseModelerOptions
)
sasa_surface()
(in
LayerDesignOperation
)
set_input_pose()
(in
MSDMover
)
setup_other_poses()
(in
BinarySilentStruct
)
sasa_surface()
(in
SelectResiduesByLayer
)
set_input_pose()
(in
MakePolyXMover
)
setup_pack_operation_movers()
(in
DockingEnsemblePrepackProtocol
)
SasaCalc
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
MembraneTopology
)
setup_pack_operation_movers()
(in
DockingPrepackProtocol
)
SasaCalcAP
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
MinMover
)
setup_packer()
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
SasaCalcCAP
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
MinPackMover
)
setup_packer_and_movemap()
(in
DesignRepackMover
)
SasaCalculator2
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
set_input_pose()
(in
MissingDensityToJumpMover
)
setup_packer_task()
(in
rosetta.protocols.antibody._protocols_antibody_
)
SasaCalculator2AP
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
set_input_pose()
(in
ModifyVariantTypeMover
)
setup_packer_task()
(in
AntibodyModeler
)
SasaCalculator2CAP
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
set_input_pose()
(in
MonteCarloRecover
)
setup_packer_task()
(in
CDRH3Modeler
)
SasaCalculatorLegacy
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
set_input_pose()
(in
MonteCarloReset
)
setup_packer_task()
(in
LoopRlxMover
)
SasaCalculatorLegacyAP
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
set_input_pose()
(in
MonteCarloTest
)
setup_parallel_antiparallel_weights()
(in
SecondaryStructureWeights
)
SasaCalculatorLegacyCAP
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
set_input_pose()
(in
MutateResidue
)
setup_pert_foldtree()
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
SasaMethod
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
O2M_MutateMover
)
setup_pose()
(in
PeriodicBoxMover
)
SasaMethodAP
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
PDBReloadMover
)
setup_pose_from_rbsegs()
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
SasaMethodCAP
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
PSSM2BfactorMover
)
setup_pose_input_stream()
(in
rosetta.protocols.stepwise.modeler.protein._protocols_stepwise_modeler_protein_
)
SasaMethodEnum
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
PackRotamersMover
)
setup_pose_rbsegs_keep_loops()
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
SasaMethodType_total
(in
rosetta.core.scoring.sasa
)
set_input_pose()
(in
PackRotamersMoverLazy
)
setup_pose_with_moving_residue_alternative_list()
(in
rosetta.protocols.stepwise.modeler.rna.rigid_body._protocols_stepwise_modeler_rna_rigid_body_
)
SasaMethodType_total
(in
SasaMethodEnum
)
set_input_pose()
(in
PeptideStapleMover
)
setup_protein_backbone_atom_id_map()
(in
rosetta.protocols.stepwise.modeler.protein._protocols_stepwise_modeler_protein_
)
SasaMethodType_total
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
PeriodicBoxMover
)
setup_relax_foldtree()
(in
MPFastRelaxMover
)
SasaOptions
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_input_pose()
(in
ProlineFixMover
)
setup_relevant_chains()
(in
StructureRestrictor
)
SasaOptionsAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_input_pose()
(in
RandomOmegaFlipMover
)
setup_rotamer_set()
(in
TryRotamers
)
SasaOptionsCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_input_pose()
(in
RandomTorsionMover
)
setup_rsdtype()
(in
GoapRsdType
)
SasaRadii
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
RepackSidechainsMover
)
setup_sampler()
(in
rosetta.protocols.stepwise.sampler.rna._protocols_stepwise_sampler_rna_
)
SasaRadii_total
(in
rosetta.core.scoring.sasa
)
set_input_pose()
(in
RepeatPropagationMover
)
setup_scorefunctions()
(in
FoldTreeHybridize
)
SasaRadii_total
(in
SasaRadii
)
set_input_pose()
(in
ReportEffectivePKA
)
setup_simple_fold_tree()
(in
AntibodyInfo
)
SasaRadii_total
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
set_input_pose()
(in
RepulsiveOnlyMover
)
setup_simple_fold_tree()
(in
AntibodyModeler
)
SasaResult
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_input_pose()
(in
ResetBaselineMover
)
setup_single_loop_double_arm_remodeling_foldtree()
(in
rosetta.protocols.grafting._protocols_grafting_
)
SasaResultAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_input_pose()
(in
ResidueTypeConstraintMover
)
setup_single_loop_single_arm_remodeling_foldtree()
(in
rosetta.protocols.grafting._protocols_grafting_
)
SasaResultCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_input_pose()
(in
ReturnSidechainMover
)
setup_stage()
(in
AbscriptStageMover
)
save_all_in_one()
(in
KClusterData
)
set_input_pose()
(in
RingConformationMover
)
setup_star_topology()
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
SAVE_ARCHIVE
(in
rosetta.basic
)
set_input_pose()
(in
RotamerTrialsMinMover
)
setup_sugar_ring_closure_constraints()
(in
RNA_SugarCloseEnergy
)
SAVE_ARCHIVE
(in
ProfTag
)
set_input_pose()
(in
RotamerTrialsMover
)
setup_suite_atom_id_map()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
SAVE_ARCHIVE
(in
rosetta.basic._basic_
)
set_input_pose()
(in
RotamerizeMover
)
setup_summary()
(in
QuotaDebug
)
save_archive()
(in
ArchiveManager
)
set_input_pose()
(in
SaneMinMover
)
setup_svm()
(in
HelixNCapperMover
)
save_archive()
(in
BaseArchiveManager
)
set_input_pose()
(in
ScoreMover
)
setup_symmetric_conformation()
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
save_binary()
(in
APCluster
)
set_input_pose()
(in
SequenceProfileMover
)
setup_temperature()
(in
SimAnnealerBase
)
save_candidates()
(in
FragmentPicker
)
set_input_pose()
(in
SetReturningPackRotamersMover
)
setup_tf()
(in
SequenceComparison
)
save_cluster_tree()
(in
KClusterData
)
set_input_pose()
(in
SetTorsion
)
setup_three_prime_phosphate_based_on_next_residue()
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
save_db()
(in
LoopHashLibrary
)
set_input_pose()
(in
ShakeStructureMover
)
setup_topology()
(in
AutoRBMover
)
save_decoys()
(in
ArchiveBase
)
set_input_pose()
(in
ShearMover
)
setup_user_coordinate_constraints()
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
save_energy()
(in
DenseNeighborIterator
)
set_input_pose()
(in
ShortBackrubMover
)
setup_user_defined_jumps()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
save_energy()
(in
OneToAllNeighborIterator
)
set_input_pose()
(in
SmallMover
)
setup_using_user_input_VDW_pose()
(in
RNA_VDW_BinChecker
)
save_energy()
(in
PeptideBondedNeighborIterator
)
set_input_pose()
(in
SuperimposeMover
)
setup_using_working_pose()
(in
RNA_VDW_BinChecker
)
save_energy()
(in
ResidueNeighborIterator
)
set_input_pose()
(in
SwitchChainOrderMover
)
setup_vall_cheating_fragments()
(in
rosetta.protocols.frags._protocols_frags_
)
save_energy()
(in
CstResNeighbIterator
)
set_input_pose()
(in
SwitchResidueTypeSetMover
)
setup_vall_fragments()
(in
rosetta.protocols.frags._protocols_frags_
)
save_energy()
(in
CentroidDisulfideEnergyContainer
)
set_input_pose()
(in
TailsScoreMover
)
setup_vary_polar_hydrogen_geometry()
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_energy()
(in
CentroidDisulfideNeighborIterator
)
set_input_pose()
(in
TaskAwareMinMover
)
setup_vary_rna_bond_geometry()
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_energy()
(in
DisulfResNeighbIterator
)
set_input_pose()
(in
TorsionDOFMover
)
setup_virtual_phosphate_variants()
(in
RNA_StructureParameters
)
save_energy()
(in
DisulfideMatchingEnergyContainer
)
set_input_pose()
(in
TorsionSetMover
)
setup_working_parameters_explicit()
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
save_energy()
(in
DisulfideMatchingNeighborIterator
)
set_input_pose()
(in
Tumble
)
setup_working_parameters_for_swa()
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
save_energy()
(in
FullatomDisulfideEnergyContainer
)
set_input_pose()
(in
UniformRotationMover
)
setupBesselOrder()
(in
FiberDiffraction
)
save_fragments()
(in
FragmentPicker
)
set_input_pose()
(in
UniformTranslationMover
)
SetupForDensityScoringMover
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
save_state()
(in
RotamerDumpMover
)
set_input_pose()
(in
VirtualRootMover
)
SetupForDensityScoringMoverAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
save_state()
(in
AbrelaxMover
)
set_input_pose()
(in
ddG
)
SetupForDensityScoringMoverCAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
save_state()
(in
ClassicAbinitio
)
set_input_pose()
(in
AsymFoldandDockMoveRbJumpMover
)
SetupForDensityScoringMoverCreator
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
save_state()
(in
ConstraintFragmentSampler
)
set_input_pose()
(in
AsymFoldandDockRbTrialMover
)
SetupForDensityScoringMoverCreatorAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
save_state()
(in
DomainAssembly
)
set_input_pose()
(in
InitializeByBins
)
SetupForDensityScoringMoverCreatorCAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
save_state()
(in
DoubleLayerKinematicAbinitio
)
set_input_pose()
(in
PerturbByBins
)
SetupForFibrilMover
(in
rosetta.protocols.fibril._protocols_fibril_
)
save_state()
(in
FoldConstraints
)
set_input_pose()
(in
ChiralMover
)
SetupForFibrilMoverAP
(in
rosetta.protocols.fibril._protocols_fibril_
)
save_state()
(in
FragmentSampler
)
set_input_pose()
(in
HbsPatcher
)
SetupForFibrilMoverCAP
(in
rosetta.protocols.fibril._protocols_fibril_
)
save_state()
(in
JumpingFoldConstraintsWrapper
)
set_input_pose()
(in
OopDPuckMinusMover
)
SetupForSymmetryMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
KinematicAbinitio
)
set_input_pose()
(in
OopDPuckPlusMover
)
SetupForSymmetryMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
KinematicTaskControl
)
set_input_pose()
(in
OopMover
)
SetupForSymmetryMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
LoopJumpFoldCst
)
set_input_pose()
(in
OopPatcher
)
SetupForSymmetryMoverCreator
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
MembraneAbinitio
)
set_input_pose()
(in
OopPuckMinusMover
)
SetupForSymmetryMoverCreatorAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
Protocol
)
set_input_pose()
(in
OopPuckPlusMover
)
SetupForSymmetryMoverCreatorCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
ResolutionSwitcher
)
set_input_pose()
(in
OopRandomPuckMover
)
SetupHotspotConstraintsLoopsMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
AbscriptLoopCloserCM
)
set_input_pose()
(in
OopRandomSmallMover
)
SetupHotspotConstraintsLoopsMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
AbscriptMover
)
set_input_pose()
(in
RationalMonteCarlo
)
SetupHotspotConstraintsLoopsMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
AbscriptStageMover
)
set_input_pose()
(in
JumpRotamerSidechainMover
)
SetupHotspotConstraintsLoopsMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
ConstraintPreparer
)
set_input_pose()
(in
PerturbChiSidechainMover
)
SetupHotspotConstraintsLoopsMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
FragmentCM
)
set_input_pose()
(in
PerturbRotamerSidechainMover
)
SetupHotspotConstraintsLoopsMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
FragmentJumpCM
)
set_input_pose()
(in
SetChiMover
)
SetupHotspotConstraintsMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
RigidChunkCM
)
set_input_pose()
(in
SidechainMCMover
)
SetupHotspotConstraintsMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
StagePreparer
)
set_input_pose()
(in
SidechainMover
)
SetupHotspotConstraintsMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
StructPerturberCM
)
set_input_pose()
(in
SidechainMoverBase
)
SetupHotspotConstraintsMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
InterfaceAnalyzerMover
)
set_input_pose()
(in
DetectSymmetry
)
SetupHotspotConstraintsMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
LoopAnalyzerMover
)
set_input_pose()
(in
ExtractAsymmetricPoseMover
)
SetupHotspotConstraintsMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
PackStatMover
)
set_input_pose()
(in
ExtractAsymmetricUnitMover
)
SetupNCSMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
AnchoredDesignMover
)
set_input_pose()
(in
FaSymDockingSlideTogether
)
SetupNCSMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
AnchoredPerturbMover
)
set_input_pose()
(in
SetupForSymmetryMover
)
SetupNCSMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
AnchoredRefineMover
)
set_input_pose()
(in
SetupNCSMover
)
SetupNCSMoverCreator
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
AntibodyModelerProtocol
)
set_input_pose()
(in
SymDockingInitialPerturbation
)
SetupNCSMoverCreatorAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
CDRsMinPackMin
)
set_input_pose()
(in
SymDockingSlideIntoContact
)
SetupNCSMoverCreatorCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
save_state()
(in
CloseOneCDRLoop
)
set_input_pose()
(in
SymEnergyCutRotamerTrialsMover
)
SetupPoissonBoltzmannPotential
(in
rosetta.protocols.pb_potential._protocols_pb_potential_
)
save_state()
(in
GraftCDRLoopsProtocol
)
set_input_pose()
(in
SymMinMover
)
SetupPoissonBoltzmannPotentialAP
(in
rosetta.protocols.pb_potential._protocols_pb_potential_
)
save_state()
(in
GraftOneCDRLoop
)
set_input_pose()
(in
SymPackRotamersMover
)
SetupPoissonBoltzmannPotentialCAP
(in
rosetta.protocols.pb_potential._protocols_pb_potential_
)
save_state()
(in
GraftedStemOptimizer
)
set_input_pose()
(in
SymRotamerTrialsMover
)
SetupPoissonBoltzmannPotentialCreator
(in
rosetta.protocols.pb_potential._protocols_pb_potential_
)
save_state()
(in
H3CterInsert
)
set_input_pose()
(in
SymShakeStructureMover
)
SetupPoissonBoltzmannPotentialCreatorAP
(in
rosetta.protocols.pb_potential._protocols_pb_potential_
)
save_state()
(in
H3PerturbCCD
)
set_input_pose()
(in
SymmetricRMSMover
)
SetupPoissonBoltzmannPotentialCreatorCAP
(in
rosetta.protocols.pb_potential._protocols_pb_potential_
)
save_state()
(in
H3RefineCCD
)
set_input_pose()
(in
TaskAwareSymMinMover
)
SetupRamaTables()
(in
RamaScore
)
save_state()
(in
LHRepulsiveRamp
)
set_input_pose()
(in
StepWiseProteinMinimizer
)
setUseDensityInMinimizer()
(in
ElectronDensity
)
save_state()
(in
ModelCDRH3
)
set_input_pose()
(in
StepWiseProteinPoseSetup
)
setUseExactDerivatives()
(in
ElectronDensity
)
save_state()
(in
RefineBetaBarrel
)
set_input_pose()
(in
StepWiseRNA_PoseSetup
)
setVAR()
(in
GDB
)
save_state()
(in
RefineOneCDRLoop
)
set_input_pose()
(in
StepWiseConnectionSampler
)
setWindow()
(in
ElectronDensity
)
save_state()
(in
RefineOneCDRLoopCentroid
)
set_input_pose()
(in
StepWiseMinimizer
)
SF_Replica
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
save_state()
(in
CDRDihedralConstraintMover
)
set_input_pose()
(in
StepWiseModeler
)
SF_ReplicaAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
save_state()
(in
ParatopeEpitopeSiteConstraintMover
)
set_input_pose()
(in
SideChainCopier
)
SF_ReplicaCAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
save_state()
(in
ParatopeSiteConstraintMover
)
set_input_pose()
(in
StepWisePacker
)
sfd_req_1benmeths_begin()
(in
MinimizationNode
)
save_state()
(in
AntibodyDesignMover
)
set_input_pose()
(in
PolarHydrogenPacker
)
sfd_req_1benmeths_end()
(in
MinimizationNode
)
save_state()
(in
AntibodyDesignProtocol
)
set_input_pose()
(in
PrecomputedLibraryMover
)
sfd_req_2benmeths_begin()
(in
MinimizationEdge
)
save_state()
(in
MutateFrameworkForCluster
)
set_input_pose()
(in
StepWiseProteinBackboneSampler
)
sfd_req_2benmeths_begin()
(in
MinimizationNode
)
save_state()
(in
AntibodyModeler
)
set_input_pose()
(in
StepWiseProteinCCD_Closer
)
sfd_req_2benmeths_end()
(in
MinimizationEdge
)
save_state()
(in
CDRH3Modeler
)
set_input_pose()
(in
StepWiseProteinCCD_MultiPoseCloser
)
sfd_req_2benmeths_end()
(in
MinimizationNode
)
save_state()
(in
CloseOneMover
)
set_input_pose()
(in
StepWiseProteinKIC_LoopBridger
)
sformat_idxof()
(in
rosetta.numeric.random._numeric_random_
)
save_state()
(in
GraftMover
)
set_input_pose()
(in
BulgeApplyMover
)
sfs_req_1benmeths_begin()
(in
MinimizationNode
)
save_state()
(in
GraftOneMover
)
set_input_pose()
(in
BulgeUnApplyMover
)
sfs_req_1benmeths_end()
(in
MinimizationNode
)
save_state()
(in
LoopRlxMover
)
set_input_pose()
(in
RNA_ChainClosureChecker
)
sfs_req_2benmeths_begin()
(in
MinimizationEdge
)
save_state()
(in
BackrubMover
)
set_input_pose()
(in
RNA_HelixAssembler
)
sfs_req_2benmeths_begin()
(in
MinimizationNode
)
save_state()
(in
BackrubProtocol
)
set_input_pose()
(in
O2PrimePacker
)
sfs_req_2benmeths_end()
(in
MinimizationEdge
)
save_state()
(in
BackrubSidechainMover
)
set_input_pose()
(in
MultiPhosphateSampler
)
sfs_req_2benmeths_end()
(in
MinimizationNode
)
save_state()
(in
CanonicalSamplingMover
)
set_input_pose()
(in
PhosphateMover
)
sfxn()
(in
RampingMover
)
save_state()
(in
FixedTemperatureController
)
set_input_pose()
(in
SugarInstantiateMover
)
sfxn_set()
(in
BackboneGridSampler
)
save_state()
(in
MetricRecorder
)
set_input_pose()
(in
SugarVirtualizeMover
)
sfxn_set()
(in
BundleGridSampler
)
save_state()
(in
MetropolisHastingsMover
)
set_input_pose()
(in
VirtualSugarJustInTimeInstantiator
)
SG_CONNECT
(in
rosetta
)
save_state()
(in
ParallelTempering
)
set_input_pose()
(in
VirtualSugarSampler
)
SG_CONNECT
(in
rosetta.core.chemical
)
save_state()
(in
ProgressBarObserver
)
set_input_pose()
(in
VirtualSugarSamplerFromStringList
)
SG_CONNECT
(in
rosetta.core.chemical._core_chemical_
)
save_state()
(in
SidechainMetropolisHastingsMover
)
set_input_pose()
(in
StepWiseMonteCarlo
)
SG_CONNECT
(in
VariantType
)
save_state()
(in
SimulatedTempering
)
set_input_pose()
(in
AddMover
)
SG_Dist_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
save_state()
(in
TemperatureController
)
set_input_pose()
(in
AddOrDeleteMover
)
SG_Dist_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
save_state()
(in
TemperingBase
)
set_input_pose()
(in
DeleteMover
)
SG_Dist_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
save_state()
(in
ThermodynamicMover
)
set_input_pose()
(in
FromScratchMover
)
sgn()
(in
rosetta.core.io.pdb._core_io_pdb_
)
save_state()
(in
ThermodynamicObserver
)
set_input_pose()
(in
ResampleMover
)
SGSG_Dihedral_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
save_state()
(in
TrialCounterObserver
)
set_input_pose()
(in
StepWiseMasterMover
)
SGSG_Dihedral_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
save_state()
(in
AssignToClustersMover
)
set_input_pose()
(in
RNA_AddDeleteMonteCarlo
)
SGSG_Dihedral_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
save_state()
(in
ClusterBase
)
set_input_pose()
(in
RNA_O2PrimeMover
)
ShakeStructureMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
ClusterPhilStyle
)
set_input_pose()
(in
RNA_TorsionMover
)
ShakeStructureMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
ClusterPhilStyle_Loop
)
set_input_pose()
(in
JumpStepWiseSampler
)
ShakeStructureMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
ClusterPhilStyle_PoseReporter
)
set_input_pose()
(in
MC_Comb
)
SHAPE_1M7
(in
rosetta.core.scoring.rna.data
)
save_state()
(in
EnsembleConstraints
)
set_input_pose()
(in
MC_OneTorsion
)
SHAPE_1M7
(in
RNA_ReactivityType
)
save_state()
(in
EnsembleConstraints_Simple
)
set_input_pose()
(in
NoOpStepWiseSampler
)
SHAPE_1M7
(in
rosetta.core.scoring.rna.data._core_scoring_rna_data_
)
save_state()
(in
GatherPosesMover
)
set_input_pose()
(in
StepWiseSamplerAny
)
ShapeComplementarityCalculator
(in
rosetta.core.scoring.sc._core_scoring_sc_
)
save_state()
(in
CoarseRNA_LoopCloser
)
set_input_pose()
(in
StepWiseSamplerComb
)
ShapeComplementarityCalculatorAP
(in
rosetta.core.scoring.sc._core_scoring_sc_
)
save_state()
(in
ExtraThreadingMover
)
set_input_pose()
(in
StepWiseSamplerOneTorsion
)
ShapeComplementarityCalculatorCAP
(in
rosetta.core.scoring.sc._core_scoring_sc_
)
save_state()
(in
LoopRelaxMover
)
set_input_pose()
(in
StepWiseSamplerOneValue
)
ShapeComplementarityCalculatorException
(in
rosetta.core.scoring.sc._core_scoring_sc_
)
save_state()
(in
LoopRelaxThreadingMover
)
set_input_pose()
(in
StepWiseSamplerOneValueComb
)
ShapeComplementarityCalculatorExceptionAP
(in
rosetta.core.scoring.sc._core_scoring_sc_
)
save_state()
(in
MultiThreadingMover
)
set_input_pose()
(in
StepWiseSamplerSized
)
ShapeComplementarityCalculatorExceptionCAP
(in
rosetta.core.scoring.sc._core_scoring_sc_
)
save_state()
(in
PartialThreadingMover
)
set_input_pose()
(in
StepWiseSamplerSizedAny
)
ShapeComplementarityFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
RecoverSideChainsMover
)
set_input_pose()
(in
StepWiseSamplerSizedComb
)
ShapeComplementarityFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
StealLigandMover
)
set_input_pose()
(in
CopyDofStepWiseSampler
)
ShapeComplementarityFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
StealSideChainsMover
)
set_input_pose()
(in
ResidueAlternativeStepWiseSampler
)
ShapeComplementarityFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
ThreadingMover
)
set_input_pose()
(in
ResidueAlternativeStepWiseSamplerComb
)
ShapeComplementarityFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
ContactMap
)
set_input_pose()
(in
ResidueListStepWiseSampler
)
ShapeComplementarityFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
FitBfactorsMover
)
set_input_pose()
(in
InputStreamStepWiseSampler
)
SharedSilentData
(in
rosetta.core.io.silent._core_io_silent_
)
save_state()
(in
LoadDensityMapMover
)
set_input_pose()
(in
ProteinBetaAntiParallelStepWiseSampler
)
SharedSilentDataAP
(in
rosetta.core.io.silent._core_io_silent_
)
save_state()
(in
RecomputeDensityMapMover
)
set_input_pose()
(in
ProteinFragmentStepWiseSampler
)
SharedSilentDataCAP
(in
rosetta.core.io.silent._core_io_silent_
)
save_state()
(in
SetCrystWeightMover
)
set_input_pose()
(in
ProteinMainChainStepWiseSampler
)
SharedSilentDataType
(in
rosetta.core.io.silent._core_io_silent_
)
save_state()
(in
SetRefinementOptionsMover
)
set_input_pose()
(in
RigidBodyStepWiseSampler
)
sharm_invTransform()
(in
SHT
)
save_state()
(in
TagPoseWithRefinementStatsMover
)
set_input_pose()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
sharm_transform()
(in
SHT
)
save_state()
(in
UpdateSolventMover
)
set_input_pose()
(in
RigidBodyStepWiseSamplerWithResidueList
)
shear()
(in
DNABasepair
)
save_state()
(in
CreateAngleConstraint
)
set_input_pose()
(in
RNA_ChiStepWiseSampler
)
ShearMinCCDTrial
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
save_state()
(in
CreateDistanceConstraint
)
set_input_pose()
(in
RNA_KIC_Sampler
)
ShearMinCCDTrialAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
save_state()
(in
CreateTorsionConstraint
)
set_input_pose()
(in
RNA_KinematicCloser
)
ShearMinCCDTrialCAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
save_state()
(in
DeclareBond
)
set_input_pose()
(in
RNA_MC_MultiSuite
)
ShearMinCCDTrialCreator
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
save_state()
(in
PeptideStubMover
)
set_input_pose()
(in
RNA_MC_Sugar
)
ShearMinCCDTrialCreatorAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
save_state()
(in
ddGMover
)
set_input_pose()
(in
RNA_MC_Suite
)
ShearMinCCDTrialCreatorCAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
save_state()
(in
GreedyOptMutationMover
)
set_input_pose()
(in
RNA_NucleosideStepWiseSampler
)
ShearMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
ParetoOptMutationMover
)
set_input_pose()
(in
RNA_SugarStepWiseSampler
)
ShearMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
DesignProteinBackboneAroundDNA
)
set_input_pose()
(in
RNA_SuiteStepWiseSampler
)
ShearMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
DnaInterfaceMinMover
)
set_input_pose()
(in
StepWiseCSA_JobDistributor
)
ShearMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
DnaInterfaceMultiStateDesign
)
set_input_pose()
(in
StepWiseJobDistributor
)
ShearMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
DnaInterfacePacker
)
set_input_pose()
(in
StepWiseMonteCarloJobDistributor
)
ShearMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
SeparateDnaFromNonDna
)
set_input_pose()
(in
CentroidRelaxMover
)
sheet
(in
ScoreType
)
save_state()
(in
ConformerSwitchMover
)
set_input_pose()
(in
FullatomRelaxMover
)
sheet
(in
rosetta.core.scoring._core_scoring_
)
save_state()
(in
DockMCMCycle
)
set_input_pose()
(in
SurfaceDockingProtocol
)
sheet
(in
rosetta.core.scoring
)
save_state()
(in
DockMCMProtocol
)
set_input_pose()
(in
SurfaceOrientMover
)
Sheet
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
DockMinMover
)
set_input_pose()
(in
SymDockBaseProtocol
)
sheet
(in
rosetta
)
save_state()
(in
DockSetupMover
)
set_input_pose()
(in
SymDockProtocol
)
sheet()
(in
SheetSet
)
save_state()
(in
DockingEnsemblePrepackProtocol
)
set_input_pose()
(in
SymDockingHiRes
)
sheet_dis_by_terminals()
(in
StrandBundleFeatures
)
save_state()
(in
DockingHighRes
)
set_input_pose()
(in
SymDockingLowRes
)
sheet_fraction()
(in
SecondaryStructure
)
save_state()
(in
DockingHighResLegacy
)
set_input_pose()
(in
SymFoldandDockMoveRbJumpMover
)
sheet_torsion()
(in
StrandBundleFeatures
)
save_state()
(in
DockingInitialPerturbation
)
set_input_pose()
(in
SymFoldandDockRbTrialMover
)
SheetAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
DockingLowRes
)
set_input_pose()
(in
SymFoldandDockSlideTrialMover
)
SheetBuilder
(in
rosetta.protocols.jumping._protocols_jumping_
)
save_state()
(in
DockingLowResEnsemble
)
set_input_pose()
(in
SymInterfaceSidechainMinMover
)
SheetBuilderAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
save_state()
(in
DockingPrepackProtocol
)
set_input_pose()
(in
SymSidechainMinMover
)
SheetBuilderCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
save_state()
(in
DockingProtocol
)
set_input_pose()
(in
MPSymDockMover
)
SheetCAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
DockingSlideIntoContact
)
set_input_pose()
(in
AlignPoseToInvrotTreeMover
)
SheetConstraintsRCG
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
save_state()
(in
EllipsoidalRandomizationMover
)
set_input_pose()
(in
StoreCombinedStoredTasksMover
)
SheetConstraintsRCGAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
save_state()
(in
FaDockingSlideIntoContact
)
set_input_pose()
(in
StoreCompoundTaskMover
)
SheetConstraintsRCGCAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
save_state()
(in
InterfaceSidechainMinMover
)
set_input_pose()
(in
StoreTaskMover
)
SheetCstGeneratorCreator
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
save_state()
(in
SidechainMinMover
)
set_input_pose()
(in
UnfoldedStateEnergyCalculatorMover
)
SheetCstGeneratorCreatorAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
save_state()
(in
TemperedDocking
)
set_input_pose_is_fa()
(in
KinematicTaskControl
)
SheetCstGeneratorCreatorCAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
save_state()
(in
MPDockingMover
)
set_input_res()
(in
RNA_DeNovoProtocol
)
SheetFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
MPDockingSetupMover
)
set_input_res_vectors()
(in
StepWiseWorkingParameters
)
SheetFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
SaneDockingProtocol
)
set_input_streams()
(in
StepWiseConnectionSampler
)
SheetFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
save_state()
(in
AddAssemblyConstraints
)
set_input_streams()
(in
StepWiseModeler
)
SheetFoldType
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
AssembleLinkerMover
)
set_input_tags()
(in
StepWiseRNA_PoseSetup
)
SheetFoldTypeManager
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
CombineChainsMover
)
set_input_tags()
(in
StepWiseWorkingParametersSetup
)
SheetFoldTypeManagerAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
PostDockAssemblyScorer
)
set_insert_flexibility()
(in
AnchoredGraftMover
)
SheetFoldTypeManagerCAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
BfactorFittingMover
)
set_insert_flexibility()
(in
CCDEndsGraftMover
)
sheets()
(in
SheetSet
)
save_state()
(in
DensityMorphingMover
)
set_insert_region()
(in
AnchoredGraftMover
)
SheetSet
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
ReportFSC
)
set_insert_region()
(in
CCDEndsGraftMover
)
SheetSetAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
ScaleMapIntensities
)
set_insert_region()
(in
GraftMoverBase
)
SheetSetCAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
save_state()
(in
SetupForDensityScoringMover
)
set_insertion_prob()
(in
VarianceStatisticsArchive
)
SheetTopologyFilter
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
save_state()
(in
ClientMover
)
set_instruction_file()
(in
AntibodyDesignMover
)
SheetTopologyFilterAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
save_state()
(in
CoMTrackerCM
)
set_instruction_file_path()
(in
AntibodyDesignProtocol
)
SheetTopologyFilterCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
save_state()
(in
EnvMover
)
set_int
(in
rosetta.utility._utility_
)
SheetTopologyFilterCreator
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
save_state()
(in
ScriptCM
)
set_integer_msg()
(in
SimulateMPIMessage
)
SheetTopologyFilterCreatorAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
save_state()
(in
MultipleDomainMover
)
set_integer_option()
(in
rosetta.basic._basic_
)
SheetTopologyFilterCreatorCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
save_state()
(in
RNA_DeNovoProtocol
)
set_integer_option()
(in
rosetta.basic.options._basic_options_
)
shift()
(in
Span
)
save_state()
(in
RNA_FragmentMover
)
set_integer_vector_option()
(in
rosetta.basic._basic_
)
shift()
(in
SmoothScoreTermCoeffs
)
save_state()
(in
RNA_LoopCloser
)
set_integer_vector_option()
(in
rosetta.basic.options._basic_options_
)
shift()
(in
DNABasestep
)
save_state()
(in
RNA_Minimizer
)
set_integers_msg()
(in
SimulateMPIMessage
)
shift()
(in
FragLib
)
save_state()
(in
RNA_Relaxer
)
set_integration_test_mode()
(in
StepWiseRNA_ModelerOptions
)
shift()
(in
TorsionFragmentLibrary
)
save_state()
(in
ReportToDB
)
set_integration_test_mode()
(in
VirtualSugarSampler
)
shift_by()
(in
FragSet
)
save_state()
(in
TrajectoryReportToDB
)
set_integration_test_mode()
(in
VirtualSugarSamplerFromStringList
)
shift_by()
(in
Frame
)
save_state()
(in
SetupForFibrilMover
)
set_integration_test_mode()
(in
StepWiseMonteCarloOptions
)
shift_by()
(in
JumpingFrame
)
save_state()
(in
BluePrintBDR
)
set_inter_atr()
(in
RotData
)
shift_by()
(in
NonContinuousFrame
)
save_state()
(in
CircularPermutation
)
set_inter_rep()
(in
RotData
)
shift_jump_numbers_in_dofs()
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
save_state()
(in
MatchResiduesMover
)
set_interface_chains()
(in
AntibodyFeatures
)
shift_jumps()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
save_state()
(in
SheetConstraintsRCG
)
set_interface_chains()
(in
InterfaceFeatures
)
shift_span()
(in
MembraneTopology
)
save_state()
(in
SetAACompositionPotential
)
set_interface_definition_task_operation()
(in
DockTaskFactory
)
shift_to()
(in
Frame
)
save_state()
(in
SetSecStructEnergies
)
set_interface_definition_task_operation()
(in
DockingHighRes
)
shift_to()
(in
JumpingFrame
)
save_state()
(in
FlexPacker
)
set_interface_definition_task_operation()
(in
DockingProtocol
)
shift_to()
(in
NonContinuousFrame
)
save_state()
(in
FlexPepDockingAbInitio
)
set_interface_dis()
(in
AntibodyDesignMover
)
shifts()
(in
CS2ndShift
)
save_state()
(in
FlexPepDockingLowRes
)
set_interface_dist()
(in
InterfaceSidechainMinMover
)
SHOBuriedUnsatisfiedPolarsCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
save_state()
(in
FlexPepDockingProtocol
)
set_interface_dist()
(in
SymInterfaceSidechainMinMover
)
SHOBuriedUnsatisfiedPolarsCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
save_state()
(in
FloppyTailMover
)
set_interface_distance()
(in
ParatopeEpitopeSiteConstraintMover
)
SHOBuriedUnsatisfiedPolarsCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
save_state()
(in
FlxbbDesign
)
set_interface_distance()
(in
ParatopeSiteConstraintMover
)
short_frag_cycle_ratio()
(in
SlidingWindowLoopClosure
)
save_state()
(in
FlxbbDesignPack
)
set_interface_jump()
(in
InterfaceAnalyzerMover
)
short_name()
(in
CarbohydrateInfo
)
save_state()
(in
InterlockAroma
)
set_interface_sasa_filter()
(in
InterfaceBindingEnergyDensityFilter
)
short_range_interactions_exist()
(in
OnTheFlyEdge
)
save_state()
(in
BDR
)
set_interfaces()
(in
SymmData
)
short_range_interactions_exist()
(in
SymmOnTheFlyEdge
)
save_state()
(in
VarLengthBuild
)
set_intermediate_structs()
(in
Batch
)
ShortBackrubMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
RemodelConstraintGenerator
)
set_internal_cycles()
(in
AddMover
)
ShortBackrubMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
NonlocalFrags
)
set_interval()
(in
Timer
)
ShortBackrubMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
TorsionFragmentMover
)
set_interval_data_dump()
(in
CanonicalSamplingMover
)
ShortBackrubMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
GeneralizedKIC
)
set_interval_pose_dump()
(in
CanonicalSamplingMover
)
ShortBackrubMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
AnchoredGraftMover
)
set_intra_atr()
(in
RotData
)
ShortBackrubMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
save_state()
(in
CCDEndsGraftMover
)
set_intra_rep()
(in
RotData
)
shorten_target_list()
(in
LigandMotifSearch
)
save_state()
(in
GraftMoverBase
)
set_invert_helix()
(in
MakeBundleHelix
)
shorten_target_list()
(in
MotifSearch
)
save_state()
(in
DeleteRegionMover
)
set_invert_helix()
(in
BundleParameters
)
shorter()
(in
xyzTriple_Real
)
save_state()
(in
InsertPoseIntoPoseMover
)
set_invert_task()
(in
ConsensusDesignMover
)
shorter()
(in
xyzTriple_SSize
)
save_state()
(in
KeepRegionMover
)
set_invrots_for_listnum()
(in
InvrotCollector
)
shorter()
(in
xyzTriple_Size
)
save_state()
(in
ReplaceRegionMover
)
set_ios_hook()
(in
Tracer
)
shorter()
(in
xyzTriple_double
)
save_state()
(in
BackboneGridSampler
)
set_is_do_minimize()
(in
PeptideDeriverFilter
)
shorter()
(in
xyzTriple_float
)
save_state()
(in
BundleGridSampler
)
set_is_dump_cyclic_poses()
(in
PeptideDeriverFilter
)
shorter()
(in
xyzVector_Real
)
save_state()
(in
FitSimpleHelix
)
set_is_dump_peptide_pose()
(in
PeptideDeriverFilter
)
shorter()
(in
xyzVector_SSize
)
save_state()
(in
MakeBundle
)
set_is_dump_prepared_pose()
(in
PeptideDeriverFilter
)
shorter()
(in
xyzVector_Size
)
save_state()
(in
MakeBundleHelix
)
set_is_dump_report_file()
(in
PeptideDeriverFilter
)
shorter()
(in
xyzVector_double
)
save_state()
(in
PerturbBundle
)
set_is_internal()
(in
StepWiseBasicWorkingParameters
)
shorter()
(in
xyzVector_float
)
save_state()
(in
PerturbBundleHelix
)
set_is_moving_res()
(in
StepWiseWorkingParameters
)
shorter_or_equal()
(in
xyzTriple_Real
)
save_state()
(in
BackboneTorsionPerturbation
)
set_is_prepend()
(in
StepWiseBasicWorkingParameters
)
shorter_or_equal()
(in
xyzTriple_SSize
)
save_state()
(in
BackboneTorsionSampler
)
set_is_prepend_map()
(in
StepWiseWorkingParameters
)
shorter_or_equal()
(in
xyzTriple_Size
)
save_state()
(in
CartesianHybridize
)
set_is_report_gzip()
(in
PeptideDeriverFilter
)
shorter_or_equal()
(in
xyzTriple_double
)
save_state()
(in
CartesianSampler
)
set_is_simple_full_length_job_params()
(in
StepWiseWorkingParameters
)
shorter_or_equal()
(in
xyzTriple_float
)
save_state()
(in
ChunkTrialMover
)
set_is_skip_zero_isc()
(in
PeptideDeriverFilter
)
shorter_or_equal()
(in
xyzVector_Real
)
save_state()
(in
DomainAssembly
)
set_is_working_res()
(in
StepWiseBasicWorkingParameters
)
shorter_or_equal()
(in
xyzVector_SSize
)
save_state()
(in
FoldTreeHybridize
)
set_iteration()
(in
VIP_Mover
)
shorter_or_equal()
(in
xyzVector_Size
)
save_state()
(in
HybridizeProtocol
)
set_iterations()
(in
GeneralizedKICperturber
)
shorter_or_equal()
(in
xyzVector_double
)
save_state()
(in
InsertChunkMover
)
set_job_data()
(in
MolWriter
)
shorter_or_equal()
(in
xyzVector_float
)
save_state()
(in
MRMover
)
set_job_id()
(in
DbTrajectoryReader
)
shortest_dis_sidechain()
(in
StrandBundleFeatures
)
save_state()
(in
WeightedFragmentSmoothTrialMover
)
set_job_id()
(in
DbTrajectoryReader
)
shortest_path()
(in
MaxSeqSepConstraintSet
)
save_state()
(in
WeightedFragmentTrialMover
)
set_job_outputter()
(in
JobDistributor
)
ShortestPathInFoldTree
(in
rosetta.core.kinematics._core_kinematics_
)
save_state()
(in
IdealizeMover
)
set_jump()
(in
Conformation
)
ShortestPathInFoldTreeAP
(in
rosetta.core.kinematics._core_kinematics_
)
save_state()
(in
BalancedKicMover
)
set_jump()
(in
SymmetricConformation
)
ShortestPathInFoldTreeCAP
(in
rosetta.core.kinematics._core_kinematics_
)
save_state()
(in
KicMover
)
set_jump()
(in
DownJumpSRFD
)
ShortLoopClosure
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
save_state()
(in
AddHydrogen
)
set_jump()
(in
AtomTree
)
ShortLoopClosureAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
save_state()
(in
AddHydrogens
)
set_jump()
(in
MoveMap
)
ShortLoopClosureCAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
save_state()
(in
CompoundTranslate
)
set_jump()
(in
JumpDownstreamSelector
)
ShortRangeTwoBodyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
save_state()
(in
ComputeLigandRDF
)
set_jump()
(in
JumpUpstreamSelector
)
ShortRangeTwoBodyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
save_state()
(in
FinalMinimizer
)
set_jump()
(in
Pose
)
ShortRangeTwoBodyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
save_state()
(in
GrowLigand
)
set_jump()
(in
ProtectedConformation
)
ShortToRealAngle()
(in
rosetta.protocols.loophash._protocols_loophash_
)
save_state()
(in
HighResDocker
)
set_jump_atom()
(in
JumpClaim
)
SHOVE_BB
(in
rosetta
)
save_state()
(in
InterfaceScoreCalculator
)
set_jump_atom_stub_id()
(in
Conformation
)
SHOVE_BB
(in
rosetta.core.chemical
)
save_state()
(in
LigandDesign
)
set_jump_atom_stub_id()
(in
AtomTree
)
SHOVE_BB
(in
rosetta.core.chemical._core_chemical_
)
save_state()
(in
MinimizeBackbone
)
set_jump_atoms()
(in
FoldTree
)
SHOVE_BB
(in
VariantType
)
save_state()
(in
MinimizeLigand
)
set_jump_library_file()
(in
RNA_DeNovoProtocol
)
ShoveResidueMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
RandomConformerMover
)
set_jump_mover()
(in
KinematicControl
)
ShoveResidueMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
RandomConformers
)
set_jump_name()
(in
SymmetryInfo
)
ShoveResidueMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
RigidSearchMover
)
set_jump_now()
(in
AtomTree
)
ShoveResidueMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
Rotate
)
set_jump_point_pair_list()
(in
StepWiseWorkingParametersSetup
)
ShoveResidueMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
Rotates
)
set_jump_res()
(in
StepWiseProteinPoseSetup
)
ShoveResidueMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
save_state()
(in
SlideTogether
)
set_jump_sample()
(in
JumpSetup
)
Show
(in
rosetta.utility._utility_
)
save_state()
(in
StartFrom
)
set_jumpAtoms()
(in
ResiduePairJump
)
show()
(in
DatabaseSessionOptions
)
save_state()
(in
TetherLigand
)
set_jumpAtoms()
(in
ResiduePairJumpSingle
)
show()
(in
JobOptions
)
save_state()
(in
Transform
)
set_just_min_after_mutation_frequency()
(in
StepWiseMonteCarloOptions
)
show()
(in
LazyResourceManager
)
save_state()
(in
Translate
)
set_just_polar_hydrogens()
(in
ConstrainToIdealMover
)
show()
(in
ResourceConfiguration
)
save_state()
(in
UnconstrainedTorsionsMover
)
set_just_rna_backbone()
(in
ConstrainToIdealMover
)
show()
(in
ResourceLocator
)
save_state()
(in
WriteLigandMolFile
)
set_Kappa()
(in
MDBase
)
show()
(in
ResourceManager
)
save_state()
(in
LoopBuildMover
)
set_keep_base_fixed()
(in
VirtualSugarJustInTimeInstantiator
)
show()
(in
ResourceOptions
)
save_state()
(in
LoopmodelWrapper
)
set_keep_base_fixed()
(in
VirtualSugarSampler
)
show()
(in
DatabaseResourceLocator
)
save_state()
(in
LoopBuilder
)
set_keep_input_protonation_state()
(in
FileDataOptions
)
show()
(in
FileListResourceLocator
)
save_state()
(in
LoopModeler
)
set_keep_pose_in_memory()
(in
StepWiseRNA_Clusterer
)
show()
(in
FileSystemResourceLocator
)
save_state()
(in
LoopMover
)
set_keep_task_allowed_aas()
(in
ResidueProbDesignOperation
)
show()
(in
NullResourceLocator
)
save_state()
(in
LoopProtocol
)
set_keep_top_designs()
(in
AntibodyDesignMover
)
show()
(in
Atom
)
save_state()
(in
MinimizationRefiner
)
set_kic_modeler_if_relevant()
(in
StepWiseRNA_ModelerOptions
)
show()
(in
ResidueLoaderOptions
)
save_state()
(in
RepackingRefiner
)
set_kin_writer()
(in
WriteKinemageOutputter
)
show()
(in
ResidueProperties
)
save_state()
(in
RotamerTrialsRefiner
)
set_kinemage_file()
(in
WriteUpstreamHitKinemage
)
show()
(in
ResidueType
)
save_state()
(in
LegacyKicSampler
)
set_kinemage_file_name()
(in
WriteUpstreamCoordinateKinemage
)
show()
(in
RingConformerSet
)
save_state()
(in
AcceptanceCheck
)
set_kinematic_defaults()
(in
PlaceOnLoop
)
show()
(in
CarbohydrateInfo
)
save_state()
(in
LoopFilter
)
set_kinematics()
(in
Protocol
)
show()
(in
Atom
)
save_state()
(in
LoopMoverGroup
)
set_kinmover()
(in
KinematicPerturber
)
show()
(in
Residue
)
save_state()
(in
PrepareForCentroid
)
set_kT()
(in
WorkUnit_RamaPerturber
)
show()
(in
EXCN_Illegal_Arguments
)
save_state()
(in
PrepareForFullatom
)
set_kT()
(in
WorkUnit_bbGauss
)
show()
(in
EXCN_Membrane
)
save_state()
(in
FastGapMover
)
set_kT()
(in
AddMover
)
show()
(in
EXCN_MembraneFoldTree
)
save_state()
(in
LoopHashDiversifier
)
set_kT()
(in
RNA_AddDeleteMonteCarlo
)
show()
(in
EXCN_Membrane_Bounds
)
save_state()
(in
LoopHashLibrary
)
set_label()
(in
TopologyClaimer
)
show()
(in
EXCN_NonMembrane
)
save_state()
(in
LoopHashMoverWrapper
)
set_landing_atom()
(in
LoopScoreInfo
)
show()
(in
EXCN_Resource_Definition
)
save_state()
(in
LoopHashRelaxProtocol
)
set_landing_domain()
(in
Loop
)
show()
(in
EXCN_VirtualRsd
)
save_state()
(in
Mover_LoopHashRefine
)
set_landing_pos()
(in
Loop
)
show()
(in
MembraneInfo
)
save_state()
(in
FoldTreeFromLoops
)
set_last_accepted_pose()
(in
MonteCarlo
)
show()
(in
Span
)
save_state()
(in
CCDLoopClosureMover
)
set_layer_mode()
(in
FlxbbDesign
)
show()
(in
SpanningTopology
)
save_state()
(in
FASelectSlidingWindowLoopClosure
)
set_lb_function()
(in
Interpolator
)
show()
(in
SymmData
)
save_state()
(in
SlidingWindowLoopClosure
)
set_legacy_mode()
(in
VirtualSugarSampler
)
show()
(in
SymmDataOptions
)
save_state()
(in
WidthFirstSlidingWindowLoopClosure
)
set_legacy_mode()
(in
VirtualSugarSamplerFromStringList
)
show()
(in
DofPassport
)
save_state()
(in
KinematicMover
)
set_length()
(in
LoopScoreInfo
)
show()
(in
AnnotatedFragData
)
save_state()
(in
KinematicWrapper
)
set_lib_chi_val()
(in
RotData
)
show()
(in
BBTorsionAndAnglesSRFD
)
save_state()
(in
LoopCM
)
set_ligand_atom_id()
(in
MetalSiteResidue
)
show()
(in
BBTorsionSRFD
)
save_state()
(in
LoopRefineInnerCycle
)
set_ligand_atom_name()
(in
MetalSiteResidue
)
show()
(in
DownJumpSRFD
)
save_state()
(in
LoopRefineInnerCycleContainer
)
set_ligand_atom_xyz()
(in
MetalSiteResidue
)
show()
(in
FragData
)
save_state()
(in
RepackTrial
)
set_ligand_jump_id()
(in
CoupledMover
)
show()
(in
Frame
)
save_state()
(in
ShearMinCCDTrial
)
set_ligand_resnum()
(in
BoltzmannRotamerMover
)
show()
(in
IndependentBBTorsionSRFD
)
save_state()
(in
SmallMinCCDTrial
)
set_ligand_resnum()
(in
CoupledMover
)
show()
(in
JumpingFrame
)
save_state()
(in
MakeRotLibMover
)
set_ligand_weight()
(in
BoltzmannRotamerMover
)
show()
(in
NonContinuousFrame
)
save_state()
(in
MatcherMover
)
set_ligand_weight()
(in
CoupledMover
)
show()
(in
SecondaryStructure
)
save_state()
(in
ExtractSubposeMover
)
set_ligres()
(in
MatcherMover
)
show()
(in
SecstructSRFD
)
save_state()
(in
MatDesGreedyOptMutationMover
)
set_limit()
(in
SetupNCSMover
)
show()
(in
SingleResidueFragData
)
save_state()
(in
SchemePlaceMotifsMover
)
set_limit_for_rotamer_combo()
(in
LimitHitsPerRotamerFilter
)
show()
(in
UpJumpSRFD
)
save_state()
(in
SymDofMover
)
set_limit_only_to_length()
(in
AddCDRProfileSetsOperation
)
show()
(in
SequenceMapping
)
save_state()
(in
CartesianMD
)
set_line_color()
(in
Bool3DGridKinemageWriter
)
show()
(in
ImportPoseOptions
)
save_state()
(in
MDBase
)
set_linear_chainbreak_weight()
(in
RNA_DeNovoProtocol
)
show()
(in
FileDataOptions
)
save_state()
(in
MedalExchangeMover
)
set_linecount_offset()
(in
JSONFormattedLoopsFileReader
)
show()
(in
PDB_DReaderOptions
)
save_state()
(in
MedalMover
)
set_linecount_offset()
(in
PoseNumberedLoopFileReader
)
show()
(in
SilentFileOptions
)
save_state()
(in
AddMPLigandMover
)
set_links()
(in
SetRotamerLinks
)
show()
(in
EXCN_InvalidFoldTree
)
save_state()
(in
AddMembraneMover
)
set_linmin_only()
(in
CartesianHybridize
)
show()
(in
FoldTree
)
save_state()
(in
FlipMover
)
set_lj_atr_weight()
(in
MatchCollisionFilter
)
show()
(in
MoveMap
)
save_state()
(in
MembranePositionFromTopologyMover
)
set_lj_cutoff()
(in
MatchCollisionFilter
)
show()
(in
Atom
)
save_state()
(in
RandomPositionRotationMover
)
set_lj_ramp_cycles()
(in
ClassicRelax
)
show()
(in
Atom_
)
save_state()
(in
RandomPositionTranslationMover
)
set_lj_ramp_inner_cycles()
(in
ClassicRelax
)
show()
(in
DunbrackConstraint
)
save_state()
(in
RotationMover
)
set_lj_rep_weight()
(in
MatchCollisionFilter
)
show()
(in
RotamerConstraint
)
save_state()
(in
SetMembraneCenterMover
)
set_lj_sol_weight()
(in
MatchCollisionFilter
)
show()
(in
PackerTask
)
save_state()
(in
SetMembraneNormalMover
)
set_local_movemap()
(in
rosetta.protocols.vip._protocols_vip_
)
show()
(in
PackerTask_
)
save_state()
(in
SetMembranePositionMover
)
set_local_positions()
(in
EnvLabelSelector
)
show()
(in
PDBInfo
)
save_state()
(in
TransformIntoMembraneMover
)
set_local_redock_only()
(in
StepWiseMonteCarloOptions
)
show()
(in
CSA
)
save_state()
(in
TranslationMover
)
set_local_refine()
(in
SymDockProtocol
)
show()
(in
ChemicalShiftAnisotropy
)
save_state()
(in
TranslationRotationMover
)
set_localstrandpair_penalty()
(in
SecondaryStructureWeights
)
show()
(in
DC
)
save_state()
(in
SymmetricAddMembraneMover
)
set_location_in_parent_node()
(in
InvrotTreeNodeBase
)
show()
(in
DipolarCoupling
)
save_state()
(in
VisualizeEmbeddingMover
)
set_logging_handler()
(in
rosetta.logging_support
)
show()
(in
Energies
)
save_state()
(in
VisualizeMembraneMover
)
set_long_range_container()
(in
Energies
)
show()
(in
RDC
)
save_state()
(in
ZincHeterodimerMover
)
set_loop()
(in
BalancedKicMover
)
show()
(in
ResidualDipolarCoupling
)
save_state()
(in
MotifGraftMover
)
set_loop()
(in
LoopMover
)
show()
(in
ScoreFunction
)
save_state()
(in
MotifDnaPacker
)
set_loop()
(in
SlidingWindowLoopClosure
)
show()
(in
AmbiguousConstraint
)
save_state()
(in
CompositionMover
)
set_loop_ang()
(in
ResidueVicinityInfo
)
show()
(in
AmbiguousNMRConstraint
)
save_state()
(in
CycleMover
)
set_loop_begin_and_end()
(in
KinematicMover
)
show()
(in
AmbiguousNMRDistanceConstraint
)
save_state()
(in
CyclicMover
)
set_loop_cluster_radius()
(in
StepWiseRNA_Clusterer
)
show()
(in
AngleConstraint
)
save_state()
(in
DsspMover
)
set_loop_combine_rate_()
(in
IndependentLoopMover
)
show()
(in
AtomPairConstraint
)
save_state()
(in
FilterMover
)
set_loop_cutpoint_in_pose_fold_tree()
(in
rosetta.protocols.loops._protocols_loops_
)
show()
(in
BackboneStubConstraint
)
save_state()
(in
FilterReporterMover
)
set_loop_dih()
(in
ResidueVicinityInfo
)
show()
(in
BackboneStubLinearConstraint
)
save_state()
(in
IfMover
)
set_loop_file_name_and_reset()
(in
Loops
)
show()
(in
BigBinConstraint
)
save_state()
(in
IteratedConvergenceMover
)
set_loop_mover()
(in
LoopRefineInnerCycle
)
show()
(in
BoundFunc
)
save_state()
(in
JumpOutMover
)
set_loop_mover()
(in
LoopRefineInnerCycleContainer
)
show()
(in
ConstantConstraint
)
save_state()
(in
MCShowMover
)
set_loop_mover()
(in
RepackTrial
)
show()
(in
Constraint
)
save_state()
(in
MonteCarloUtil
)
set_loop_mover()
(in
ShearMinCCDTrial
)
show()
(in
ConstraintSet
)
save_state()
(in
MoveMapMover
)
set_loop_mover()
(in
SmallMinCCDTrial
)
show()
(in
Constraints
)
save_state()
(in
Mover
)
set_loop_pose()
(in
rosetta.protocols.generalized_kinematic_closure._protocols_generalized_kinematic_closure_
)
show()
(in
CoordinateConstraint
)
save_state()
(in
MoverApplyingMover
)
set_loop_segments()
(in
AtomCoordinateCstMover
)
show()
(in
DOF_Constraint
)
save_state()
(in
MoverContainer
)
set_loop_start()
(in
SetupHotspotConstraintsLoopsMover
)
show()
(in
DihedralConstraint
)
save_state()
(in
MoverForPoseList
)
set_loop_stop()
(in
SetupHotspotConstraintsLoopsMover
)
show()
(in
DihedralPairConstraint
)
save_state()
(in
NullMover
)
set_loopres_base2_atoms()
(in
ResidueVicinityInfo
)
show()
(in
DistancePairConstraint
)
save_state()
(in
PDBDumpMover
)
set_loopres_base_atoms()
(in
ResidueVicinityInfo
)
show()
(in
FabConstraint
)
save_state()
(in
ProfilerMover
)
set_loops()
(in
LoopMover
)
show()
(in
KofNConstraint
)
save_state()
(in
PyMolMover
)
set_loops()
(in
RestrictToLoops
)
show()
(in
LocalCoordinateConstraint
)
save_state()
(in
RampingMover
)
set_loops_and_anchor()
(in
AnchorMoversData
)
show()
(in
MultiConstraint
)
save_state()
(in
RandomMover
)
set_loops_from_file()
(in
RestrictToLoops
)
show()
(in
NamedAngleConstraint
)
save_state()
(in
RepeatMover
)
set_loops_pointer()
(in
GuardedLoopsFromFile
)
show()
(in
NamedAtomPairConstraint
)
save_state()
(in
SequenceMover
)
set_loose_rep_cutoff()
(in
RNA_AtrRepChecker
)
show()
(in
NonResidueTypeConstraint
)
save_state()
(in
StructureRestrictor
)
set_lores_scorefxn()
(in
RNA_DeNovoProtocol
)
show()
(in
OffsetPeriodicBoundFunc
)
save_state()
(in
TrialMover
)
set_low_energy_ring_conformers()
(in
ResidueType
)
show()
(in
PeriodicBoundFunc
)
save_state()
(in
VectorPoseMover
)
set_low_res_protocol_only()
(in
DockingProtocol
)
show()
(in
ResidueTypeConstraint
)
save_state()
(in
WhileMover
)
set_lower_connect_atom()
(in
ResidueType
)
show()
(in
ResidueTypeLinkingConstraint
)
save_state()
(in
StructAvrgMover
)
set_lower_threshold()
(in
IfThenFilter
)
show()
(in
SequenceProfileConstraint
)
save_state()
(in
NcbbDockDesignProtocol
)
set_lower_value()
(in
PerturbBundleOptions
)
show()
(in
SiteConstraint
)
save_state()
(in
OopCreatorMover
)
set_lowest_energy_ring_conformer()
(in
ResidueType
)
show()
(in
SiteConstraintResidues
)
save_state()
(in
OopDockDesignProtocol
)
set_lowest_score_pose()
(in
MonteCarlo
)
show()
(in
DistanceFunc
)
save_state()
(in
CartesianNormalModeMover
)
set_lowres_score_func()
(in
H3PerturbCCD
)
show()
(in
CBSG_Dihedral_Func
)
save_state()
(in
NormalModeMinimizer
)
set_lowres_score_func()
(in
ModelCDRH3
)
show()
(in
CB_Angle_Func
)
save_state()
(in
NormalModeRelaxMover
)
set_lowres_score_func()
(in
CDRH3Modeler
)
show()
(in
CaCbCbCa_Dihedral_Func
)
save_state()
(in
TorsionNormalModeMover
)
set_lowres_scorefxn()
(in
DockingProtocol
)
show()
(in
CaCbCb_Angle_Func
)
save_state()
(in
SetupPoissonBoltzmannPotential
)
set_lowres_scorefxn()
(in
TemperedDocking
)
show()
(in
Cb_Distance_Func
)
save_state()
(in
AddChainBreak
)
set_lowres_scorefxn()
(in
SymDockProtocol
)
show()
(in
Cen_Distance_Func
)
save_state()
(in
AddSidechainConstraintsToHotspots
)
set_lowtemp()
(in
SimAnnealerBase
)
show()
(in
NCaCaC_Dihedral_Func
)
save_state()
(in
BackrubDDMover
)
set_lt_dih()
(in
ResidueVicinityInfo
)
show()
(in
SGSG_Dihedral_Func
)
save_state()
(in
BestHotspotCstMover
)
set_magnitude()
(in
PerturbChiSidechainMover
)
show()
(in
SG_Dist_Func
)
save_state()
(in
BuildAlaPose
)
set_magnitude_rotation()
(in
RigidBodyMotionMover
)
show()
(in
ElectronDensityOptions
)
save_state()
(in
DesignMinimizeHbonds
)
set_magnitude_translation()
(in
RigidBodyMotionMover
)
show()
(in
EtableOptions
)
save_state()
(in
DisulfideMover
)
set_mainchain_atoms()
(in
ResidueType
)
show()
(in
FiberDiffractionOptions
)
save_state()
(in
DockAndRetrieveSidechains
)
set_mainchain_torsions()
(in
RNA_SilentStruct
)
show()
(in
AmberPeriodicFunc
)
save_state()
(in
DockWithHotspotMover
)
set_major_helix_params()
(in
MakeBundleHelix
)
show()
(in
CharmmPeriodicFunc
)
save_state()
(in
FavorNativeResiduePreCycle
)
set_make_movie()
(in
StepWiseMonteCarloOptions
)
show()
(in
CircularGeneral1D_Func
)
save_state()
(in
FavorNonNativeResiduePreCycle
)
set_manager()
(in
HedgeArchive
)
show()
(in
CircularHarmonicFunc
)
save_state()
(in
HotspotDisjointedFoldTreeMover
)
set_manager()
(in
IterativeAbrelax
)
show()
(in
CircularPowerFunc
)
save_state()
(in
HotspotHasherMover
)
set_manager()
(in
IterativeBase
)
show()
(in
CircularSigmoidalFunc
)
save_state()
(in
InterfaceRecapitulationMover
)
set_manager()
(in
IterativeCentroid
)
show()
(in
CircularSplineFunc
)
save_state()
(in
LoopFinder
)
set_manager()
(in
IterativeFullatom
)
show()
(in
ConstantFunc
)
save_state()
(in
LoopLengthChange
)
set_manager()
(in
AbstractArchiveBase
)
show()
(in
CountViolFunc
)
save_state()
(in
LoopMoverFromCommandLine
)
set_manager()
(in
ArchiveBase
)
show()
(in
EtableFunc
)
save_state()
(in
LoopOver
)
set_manager()
(in
EvaluatedArchive
)
show()
(in
FadeFunc
)
save_state()
(in
LoopRemodel
)
set_manager()
(in
NormalizedEvaluatedArchive
)
show()
(in
FlatHarmonicFunc
)
save_state()
(in
MapHotspot
)
set_manager()
(in
VarianceStatisticsArchive
)
show()
(in
Func
)
save_state()
(in
PatchdockTransform
)
set_map_cst_from_centroid_to_fa()
(in
ResolutionSwitcher
)
show()
(in
GaussianChainDoubleFunc
)
save_state()
(in
PeptideStapleDesignMover
)
set_map_type()
(in
PhenixInterface
)
show()
(in
GaussianChainFunc
)
save_state()
(in
PlaceOnLoop
)
set_mapfile_activated()
(in
StepWiseProteinModelerOptions
)
show()
(in
GaussianChainQuadrupleFunc
)
save_state()
(in
PlaceSimultaneouslyMover
)
set_mapreso()
(in
ElectronDensityOptions
)
show()
(in
GaussianChainSingleFunc
)
save_state()
(in
PlaceStubMover
)
set_master()
(in
Bool3DGridKinemageWriter
)
show()
(in
GaussianChainTripleFunc
)
save_state()
(in
PlacementAuctionMover
)
set_master()
(in
WriteUpstreamHitKinemage
)
show()
(in
GaussianFunc
)
save_state()
(in
PlacementMinimizationMover
)
set_master_packer()
(in
StepWiseConnectionSampler
)
show()
(in
HarmonicFunc
)
save_state()
(in
PrepackMover
)
set_match_algorithm()
(in
WriteUpstreamCoordinateKinemage
)
show()
(in
IdentityFunc
)
save_state()
(in
ProteinInterfaceMultiStateDesignMover
)
set_match_positions()
(in
MatcherMover
)
show()
(in
KarplusFunc
)
save_state()
(in
RandomMutation
)
set_match_score_writer()
(in
MatchProcessor
)
show()
(in
LinearPenaltyFunction
)
save_state()
(in
RepackMinimize
)
set_matrix_A()
(in
SVD_Solver
)
show()
(in
MinMultiHarmonicFunc
)
save_state()
(in
SaveAndRetrieveSidechains
)
set_matrix_entry()
(in
BinTransitionData
)
show()
(in
MixtureFunc
)
save_state()
(in
SetAtomTree
)
set_max_allowed_conserved_pos_mutations()
(in
ConservedPosMutationFilter
)
show()
(in
PeriodicFunc
)
save_state()
(in
SetTemperatureFactor
)
set_max_angle_disp_4()
(in
BackrubMover
)
show()
(in
SOGFunc
)
save_state()
(in
SetupHotspotConstraintsLoopsMover
)
set_max_angle_disp_7()
(in
BackrubMover
)
show()
(in
ScalarWeightedFunc
)
save_state()
(in
SetupHotspotConstraintsMover
)
set_max_angle_disp_slope()
(in
BackrubMover
)
show()
(in
SigmoidFunc
)
save_state()
(in
ShoveResidueMover
)
set_max_atoms()
(in
BackrubMover
)
show()
(in
SkipViolFunc
)
save_state()
(in
SpinMover
)
set_max_attempts()
(in
LoopBuilder
)
show()
(in
SoedingFunc
)
save_state()
(in
SubroutineMover
)
set_max_bbrms()
(in
LoopHashSampler
)
show()
(in
SplineFunc
)
save_state()
(in
TaskAwareCsts
)
set_max_chi_considered()
(in
RRComparerChiDiff
)
show()
(in
SquareWell2Func
)
save_state()
(in
TopologyBrokerMover
)
set_max_decoys()
(in
StepWiseRNA_Clusterer
)
show()
(in
SquareWellFunc
)
save_state()
(in
TryRotamers
)
set_max_decoys()
(in
StepWiseClusterer
)
show()
(in
SumFunc
)
save_state()
(in
VLB
)
set_max_decoys()
(in
StepWiseLegacyClusterer
)
show()
(in
TopOutFunc
)
save_state()
(in
AutoRBMover
)
set_max_decoys()
(in
StepWiseLegacyClustererSilentBased
)
show()
(in
USOGFunc
)
save_state()
(in
FragInsertAndAlignMover
)
set_max_decoys()
(in
StepWiseRNA_CombineLongLoopFilterer
)
show()
(in
FadeInterval
)
save_state()
(in
GaussianRBSegmentMover
)
set_max_distance()
(in
RigidBodyStepWiseSamplerValueRange
)
show()
(in
HBEvalTuple
)
save_state()
(in
HelicalGaussianMover
)
set_max_gaplength_to_model()
(in
MRMover
)
show()
(in
HBond
)
save_state()
(in
IdealizeHelicesMover
)
set_max_generations()
(in
GeneticAlgorithm
)
show()
(in
HBondOptions
)
save_state()
(in
MakeStarTopologyMover
)
set_max_generations()
(in
GeneticAlgorithmBase
)
show()
(in
HBondSet
)
save_state()
(in
OptimizeThreadingMover
)
set_max_insertion()
(in
CartesianHybridize
)
show()
(in
Polynomial_1d
)
save_state()
(in
RBSegmentMover
)
set_max_insertion()
(in
FoldTreeHybridize
)
show()
(in
EnergyMethodOptions
)
save_state()
(in
RBSegmentRelax
)
set_max_kic_build_attempts()
(in
LoopMover_Perturb_KIC
)
show()
(in
FreeDOF_Options
)
save_state()
(in
SequenceShiftMover
)
set_max_missing_weight()
(in
StepWiseMonteCarloOptions
)
show()
(in
MultiProbePerSphereAccumulator
)
save_state()
(in
StrandTwistingMover
)
set_max_nstruct()
(in
LoopHashSampler
)
show()
(in
MultiProbePoseAccumulator
)
save_state()
(in
AtomCoordinateCstMover
)
set_max_ntries()
(in
StepWiseSampleAndScreen
)
show()
(in
RNA_EnergyMethodOptions
)
save_state()
(in
CentroidRelax
)
set_max_pop_size()
(in
GeneticAlgorithm
)
show()
(in
HomogeneousTransform_T_double_T
)
save_state()
(in
ClassicRelax
)
set_max_pop_size()
(in
GeneticAlgorithmBase
)
show()
(in
Polynomial_1d
)
save_state()
(in
FastRelax
)
set_max_radius()
(in
LoopHashSampler
)
show()
(in
xyzMatrix_T_float_T
)
save_state()
(in
LocalRelax
)
set_max_range()
(in
RNA_ChiStepWiseSampler
)
show()
(in
HyperRectangle
)
save_state()
(in
MiniRelax
)
set_max_registry_shift()
(in
ChunkTrialMover
)
show()
(in
KDPoint
)
save_state()
(in
RelaxProtocolBase
)
set_max_registry_shift()
(in
FoldTreeHybridize
)
show()
(in
KDPointList
)
save_state()
(in
MPFastRelaxMover
)
set_max_repeats()
(in
SymDockProtocol
)
show()
(in
RotamerDumpMover
)
save_state()
(in
MembraneCenterPerturbationMover
)
set_max_rms()
(in
LoopHashSampler
)
show()
(in
AbrelaxMover
)
save_state()
(in
MembraneNormalPerturbationMover
)
set_max_rot_bumpenergy()
(in
BumpSelector
)
show()
(in
AlternativePairings
)
save_state()
(in
MovePoseToMembraneCenterMover
)
set_max_sample_iterations()
(in
KinematicPerturber
)
show()
(in
ClassicAbinitio
)
save_state()
(in
RigidBodyDeterministicSpinMover
)
set_max_samples()
(in
BackboneGridSampler
)
show()
(in
ConstraintFragmentSampler
)
save_state()
(in
RigidBodyDofPerturbMover
)
set_max_samples()
(in
BundleGridSampler
)
show()
(in
DomainAssembly
)
save_state()
(in
RigidBodyDofRandomTransMover
)
set_max_seq_sep()
(in
JumpingFoldConstraintsWrapper
)
show()
(in
DoubleLayerKinematicAbinitio
)
save_state()
(in
RigidBodyDofRandomizeMover
)
set_max_seq_sep()
(in
KinematicAbinitio
)
show()
(in
FoldConstraints
)
save_state()
(in
RigidBodyDofSeqPerturbMover
)
set_max_seq_sep()
(in
MaxSeqSepConstraintSet
)
show()
(in
FragmentSampler
)
save_state()
(in
RigidBodyDofSeqRandomizeMover
)
set_max_small_angle()
(in
OopRandomSmallMover
)
show()
(in
JumpingFoldConstraintsWrapper
)
save_state()
(in
RigidBodyDofSeqTransMover
)
set_max_strand_dist_cutoff()
(in
SecondaryStructureWeights
)
show()
(in
KinematicAbinitio
)
save_state()
(in
RigidBodyDofTransMover
)
set_max_struct()
(in
LoopHashSampler
)
show()
(in
KinematicTaskControl
)
save_state()
(in
RigidBodyMotionMover
)
set_max_struct()
(in
CombinePoseMover
)
show()
(in
LoopJumpFoldCst
)
save_state()
(in
RigidBodyMover
)
set_max_struct_per_radius()
(in
LoopHashSampler
)
show()
(in
MembraneAbinitio
)
save_state()
(in
RigidBodyPerturbMover
)
set_max_tries()
(in
RNA_KIC_Sampler
)
show()
(in
PairingStatEntry
)
save_state()
(in
RigidBodyPerturbNoCenterMover
)
set_max_tries_multiplier_for_ccd()
(in
StepWiseBasicOptions
)
show()
(in
Protocol
)
save_state()
(in
RigidBodyPerturbRandomJumpMover
)
set_max_try()
(in
CombinePoseMover
)
show()
(in
ResolutionSwitcher
)
save_state()
(in
RigidBodyRandomizeMover
)
set_maxfrac()
(in
WorkUnit_CombinePose
)
show()
(in
StrandConstraints
)
save_state()
(in
RigidBodySpinMover
)
set_maxfrac_crossover()
(in
CombinePoseMover
)
show()
(in
AbscriptLoopCloserCM
)
save_state()
(in
RigidBodyTransMover
)
set_maxtrials()
(in
GenericMonteCarloMover
)
show()
(in
AbscriptMover
)
save_state()
(in
RollMover
)
set_mc()
(in
ClassicAbinitio
)
show()
(in
AbscriptStageMover
)
save_state()
(in
RotateJumpAxisMover
)
set_mc()
(in
MembraneAbinitio
)
show()
(in
ConstraintPreparer
)
save_state()
(in
UniformRigidBodyCM
)
set_mc()
(in
LoopRefineInnerCycle
)
show()
(in
FragmentCM
)
save_state()
(in
UniformRigidBodyMover
)
set_mc()
(in
LoopRefineInnerCycleContainer
)
show()
(in
FragmentJumpCM
)
save_state()
(in
UniformSphereTransMover
)
set_mc()
(in
RepackTrial
)
show()
(in
RigidChunkCM
)
save_state()
(in
WholeBodyRotationMover
)
set_mc()
(in
ShearMinCCDTrial
)
show()
(in
StagePreparer
)
save_state()
(in
WholeBodyTranslationMover
)
set_mc()
(in
SmallMinCCDTrial
)
show()
(in
StructPerturberCM
)
save_state()
(in
AdditionalOutputWrapper
)
set_mc()
(in
TrialMover
)
show()
(in
InterfaceAnalyzerMover
)
save_state()
(in
MultipleOutputWrapper
)
set_mc()
(in
ClassicRelax
)
show()
(in
LoopAnalyzerMover
)
save_state()
(in
MultiplePoseMover
)
set_MC()
(in
MonteCarloRecover
)
show()
(in
PackStatMover
)
save_state()
(in
ParsedProtocol
)
set_MC()
(in
MonteCarloReset
)
show()
(in
AnchoredDesignMover
)
save_state()
(in
SavePoseMover
)
set_MC()
(in
MonteCarloTest
)
show()
(in
AnchoredPerturbMover
)
save_state()
(in
RotamerRecoveryMover
)
set_mc_scorefunction()
(in
CartesianSampler
)
show()
(in
AnchoredRefineMover
)
save_state()
(in
CAcstGenerator
)
set_mc_temperature()
(in
ShakeStructureMover
)
show()
(in
Ab_TemplateInfo
)
save_state()
(in
CloseFold
)
set_MCA()
(in
DenseIGRepacker
)
show()
(in
AntibodyInfo
)
save_state()
(in
CoordinateCst
)
set_mcfi()
(in
EnzConstraintParameters
)
show()
(in
AntibodyModelerProtocol
)
save_state()
(in
DefineMovableLoops
)
set_mean()
(in
ddGMover
)
show()
(in
CDRsMinPackMin
)
save_state()
(in
GrowPeptides
)
set_membrane()
(in
ImportPoseOptions
)
show()
(in
CloseOneCDRLoop
)
save_state()
(in
SeedFoldTree
)
set_membrane_info()
(in
Conformation
)
show()
(in
GraftCDRLoopsProtocol
)
save_state()
(in
SeedSetupMover
)
set_membrane_jump()
(in
MembraneInfo
)
show()
(in
GraftOneCDRLoop
)
save_state()
(in
SegmentHybridizer
)
set_membrane_steepness()
(in
MembraneInfo
)
show()
(in
GraftedStemOptimizer
)
save_state()
(in
SwapSegment
)
set_membrane_thickness()
(in
MembraneInfo
)
show()
(in
H3CterInsert
)
save_state()
(in
EvaluatedTrialMover
)
set_memory_limit()
(in
WorkUnitQueue
)
show()
(in
H3PerturbCCD
)
save_state()
(in
AddCavitiesMover
)
set_memory_max_for_rpes()
(in
DoubleLazyInteractionGraph
)
show()
(in
H3RefineCCD
)
save_state()
(in
AddChainMover
)
set_metal_bond_angle_constraint_multiplier()
(in
ImportPoseOptions
)
show()
(in
LHRepulsiveRamp
)
save_state()
(in
AddConstraintsToCurrentConformationMover
)
set_metal_bond_dist_constraint_multiplier()
(in
ImportPoseOptions
)
show()
(in
ModelCDRH3
)
save_state()
(in
AddJobPairData
)
set_metal_bond_LJ_multiplier()
(in
ImportPoseOptions
)
show()
(in
RefineBetaBarrel
)
save_state()
(in
AlignChainMover
)
set_method_weights()
(in
ScoreFunction
)
show()
(in
RefineOneCDRLoop
)
save_state()
(in
BBConRotMover
)
set_method_weights()
(in
EnergyMethodOptions
)
show()
(in
RefineOneCDRLoopCentroid
)
save_state()
(in
BBG8T3AMover
)
set_metropolis_hastings_mover()
(in
BackrubMover
)
show()
(in
CDRDihedralConstraintMover
)
save_state()
(in
BBGaussianMover
)
set_metropolis_hastings_mover()
(in
BackrubSidechainMover
)
show()
(in
ParatopeEpitopeSiteConstraintMover
)
save_state()
(in
BackboneMover
)
set_metropolis_hastings_mover()
(in
ThermodynamicMover
)
show()
(in
ParatopeSiteConstraintMover
)
save_state()
(in
BoltzmannRotamerMover
)
set_metropolis_hastings_mover()
(in
BalancedKicMover
)
show()
(in
AntibodyDesignMover
)
save_state()
(in
ChainSplitMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDeterministicSpinMover
)
show()
(in
AntibodyDesignProtocol
)
save_state()
(in
ChangeAndResetFoldTreeMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDofPerturbMover
)
show()
(in
MutateFrameworkForCluster
)
save_state()
(in
ClearConstraintsMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDofRandomTransMover
)
show()
(in
AntibodyModeler
)
save_state()
(in
CombinePoseMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDofRandomizeMover
)
show()
(in
CDRH3Modeler
)
save_state()
(in
ConsensusDesignMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDofSeqPerturbMover
)
show()
(in
CloseOneMover
)
save_state()
(in
ConstrainToIdealMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDofSeqRandomizeMover
)
show()
(in
GraftMover
)
save_state()
(in
ConstraintSetMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDofSeqTransMover
)
show()
(in
GraftOneMover
)
save_state()
(in
ContingentAcceptMover
)
set_metropolis_hastings_mover()
(in
RigidBodyDofTransMover
)
show()
(in
LoopRlxMover
)
save_state()
(in
CopyDofMover
)
set_metropolis_hastings_mover()
(in
RigidBodyMover
)
show()
(in
BackrubMover
)
save_state()
(in
CoupledMover
)
set_metropolis_hastings_mover()
(in
RigidBodyPerturbMover
)
show()
(in
BackrubProtocol
)
save_state()
(in
CutChainMover
)
set_metropolis_hastings_mover()
(in
RigidBodyPerturbNoCenterMover
)
show()
(in
BackrubSidechainMover
)
save_state()
(in
CyclizationMover
)
set_metropolis_hastings_mover()
(in
RigidBodyPerturbRandomJumpMover
)
show()
(in
CanonicalSamplingMover
)
save_state()
(in
DME_FilterMover
)
set_metropolis_hastings_mover()
(in
RigidBodyRandomizeMover
)
show()
(in
FixedTemperatureController
)
save_state()
(in
DeleteChainsMover
)
set_metropolis_hastings_mover()
(in
RigidBodySpinMover
)
show()
(in
HamiltonianExchange
)
save_state()
(in
DesignRepackMover
)
set_metropolis_hastings_mover()
(in
RigidBodyTransMover
)
show()
(in
MetricRecorder
)
save_state()
(in
DisulfideInsertionMover
)
set_metropolis_hastings_mover()
(in
UniformRigidBodyMover
)
show()
(in
MetropolisHastingsMover
)
save_state()
(in
DumpPdb
)
set_metropolis_hastings_mover()
(in
UniformSphereTransMover
)
show()
(in
MultiTemperatureTrialCounter
)
save_state()
(in
EnergyCutRotamerTrialsMinMover
)
set_metropolis_hastings_mover()
(in
BBConRotMover
)
show()
(in
ParallelTempering
)
save_state()
(in
EnergyCutRotamerTrialsMover
)
set_metropolis_hastings_mover()
(in
BBG8T3AMover
)
show()
(in
ProgressBarObserver
)
save_state()
(in
ExtendedPoseMover
)
set_metropolis_hastings_mover()
(in
BBGaussianMover
)
show()
(in
SidechainMetropolisHastingsMover
)
save_state()
(in
FavorSequenceProfile
)
set_metropolis_hastings_mover()
(in
BackboneMover
)
show()
(in
SimulatedTempering
)
save_state()
(in
FavorSymmetricSequence
)
set_metropolis_hastings_mover()
(in
ShearMover
)
show()
(in
TemperatureController
)
save_state()
(in
FindConsensusSequence
)
set_metropolis_hastings_mover()
(in
SmallMover
)
show()
(in
TemperingBase
)
save_state()
(in
ForceDisulfidesMover
)
set_metropolis_hastings_mover()
(in
JumpRotamerSidechainMover
)
show()
(in
ThermodynamicMover
)
save_state()
(in
GenericMonteCarloMover
)
set_metropolis_hastings_mover()
(in
PerturbChiSidechainMover
)
show()
(in
ThermodynamicObserver
)
save_state()
(in
GreenPacker
)
set_metropolis_hastings_mover()
(in
PerturbRotamerSidechainMover
)
show()
(in
TrialCounterObserver
)
save_state()
(in
LoadPDBMover
)
set_metropolis_hastings_mover()
(in
SidechainMCMover
)
show()
(in
AssignToClustersMover
)
save_state()
(in
LoadUnboundRotMover
)
set_metropolis_hastings_mover()
(in
SidechainMover
)
show()
(in
ClusterBase
)
save_state()
(in
MSDMover
)
set_metropolis_hastings_mover()
(in
SidechainMoverBase
)
show()
(in
ClusterPhilStyle
)
save_state()
(in
MakePolyXMover
)
set_mg_calculation_annotated_sequence()
(in
RNA_ScoringInfo
)
show()
(in
ClusterPhilStyle_Loop
)
save_state()
(in
MembraneTopology
)
set_middle_pack_min()
(in
AntibodyModelerProtocol
)
show()
(in
ClusterPhilStyle_PoseReporter
)
save_state()
(in
MinMover
)
set_min()
(in
ddGMover
)
show()
(in
EnsembleConstraints
)
save_state()
(in
MinPackMover
)
set_min_allowed_score()
(in
FragmentScoringMethod
)
show()
(in
EnsembleConstraints_Simple
)
save_state()
(in
MissingDensityToJumpMover
)
set_min_atoms()
(in
BackrubMover
)
show()
(in
GatherPosesMover
)
save_state()
(in
ModifyVariantTypeMover
)
set_min_bbrms()
(in
LoopHashSampler
)
show()
(in
CoarseRNA_LoopCloser
)
save_state()
(in
MonteCarloRecover
)
set_min_chi()
(in
RotData
)
show()
(in
ExtraThreadingMover
)
save_state()
(in
MonteCarloReset
)
set_min_cst()
(in
ddGMover
)
show()
(in
IgnoreSubsetConstraintSet
)
save_state()
(in
MonteCarloTest
)
set_min_eps()
(in
RotData
)
show()
(in
LoopRelaxMover
)
save_state()
(in
MutateResidue
)
set_min_frag_length()
(in
ClassicFragmentMover
)
show()
(in
LoopRelaxThreadingMover
)
save_state()
(in
O2M_MutateMover
)
set_min_max_angles()
(in
RollMover
)
show()
(in
MultiThreadingMover
)
save_state()
(in
PDBReloadMover
)
set_min_num_south_sugar_filter()
(in
StepWiseRNA_Clusterer
)
show()
(in
PartialThreadingMover
)
save_state()
(in
PSSM2BfactorMover
)
set_min_omg()
(in
RotData
)
show()
(in
RecoverSideChainsMover
)
save_state()
(in
PackRotamersMover
)
set_min_options()
(in
MinimizationRefiner
)
show()
(in
StealLigandMover
)
save_state()
(in
PackRotamersMoverLazy
)
set_min_overlap()
(in
ClassicFragmentMover
)
show()
(in
StealSideChainsMover
)
save_state()
(in
PeptideStapleMover
)
set_min_rms()
(in
LoopHashSampler
)
show()
(in
ThreadingMover
)
save_state()
(in
PeriodicBoxMover
)
set_min_scorefunction()
(in
CartesianHybridize
)
show()
(in
AmbiguousMultiConstraint
)
save_state()
(in
ProlineFixMover
)
set_min_tolerance()
(in
DockMinMover
)
show()
(in
BindingSiteConstraint
)
save_state()
(in
RandomOmegaFlipMover
)
set_min_tolerance()
(in
FitSimpleHelix
)
show()
(in
COMCoordinateConstraint
)
save_state()
(in
RandomTorsionMover
)
set_min_tolerance()
(in
StepWiseProteinMinimizer
)
show()
(in
MaxSeqSepConstraintSet
)
save_state()
(in
RepackSidechainsMover
)
set_min_tolerance()
(in
StepWiseBasicOptions
)
show()
(in
SequenceCoupling1BDConstraint
)
save_state()
(in
RepeatPropagationMover
)
set_min_type()
(in
AnchoredPerturbMover
)
show()
(in
SequenceCouplingConstraint
)
save_state()
(in
ReportEffectivePKA
)
set_min_type()
(in
AnchoredRefineMover
)
show()
(in
ContactMap
)
save_state()
(in
RepulsiveOnlyMover
)
set_min_type()
(in
DockMCMCycle
)
show()
(in
FitBfactorsMover
)
save_state()
(in
ResetBaselineMover
)
set_min_type()
(in
DockMinMover
)
show()
(in
LoadDensityMapMover
)
save_state()
(in
ResidueTypeConstraintMover
)
set_min_type()
(in
DockingHighResLegacy
)
show()
(in
RecomputeDensityMapMover
)
save_state()
(in
ReturnSidechainMover
)
set_min_type()
(in
RNA_Minimizer
)
show()
(in
SetCrystWeightMover
)
save_state()
(in
RingConformationMover
)
set_min_type()
(in
FitSimpleHelix
)
show()
(in
SetRefinementOptionsMover
)
save_state()
(in
RotamerTrialsMinMover
)
set_min_type()
(in
CentroidRelax
)
show()
(in
TagPoseWithRefinementStatsMover
)
save_state()
(in
RotamerTrialsMover
)
set_min_type()
(in
StepWiseProteinMinimizer
)
show()
(in
UpdateSolventMover
)
save_state()
(in
RotamerizeMover
)
set_min_type()
(in
StepWiseBasicOptions
)
show()
(in
CreateAngleConstraint
)
save_state()
(in
SaneMinMover
)
set_min_type()
(in
SymDockingHiRes
)
show()
(in
CreateDistanceConstraint
)
save_state()
(in
ScoreMover
)
set_minfrac()
(in
WorkUnit_CombinePose
)
show()
(in
CreateTorsionConstraint
)
save_state()
(in
SequenceProfileMover
)
set_minfrac_crossover()
(in
CombinePoseMover
)
show()
(in
DeclareBond
)
save_state()
(in
SetReturningPackRotamersMover
)
set_minimization_graph()
(in
Energies
)
show()
(in
PeptideStubMover
)
save_state()
(in
SetTorsion
)
set_minimization_score_function()
(in
ddGMover
)
show()
(in
ddGMover
)
save_state()
(in
ShakeStructureMover
)
set_minimize()
(in
CombinePoseMover
)
show()
(in
GreedyOptMutationMover
)
save_state()
(in
ShearMover
)
set_minimize_after_delete()
(in
DeleteMover
)
show()
(in
ParetoOptMutationMover
)
save_state()
(in
ShortBackrubMover
)
set_minimize_after_delete()
(in
StepWiseMonteCarloOptions
)
show()
(in
DesignProteinBackboneAroundDNA
)
save_state()
(in
SmallMover
)
set_minimize_all()
(in
RNA_HelixAssembler
)
show()
(in
DnaInterfaceMinMover
)
save_state()
(in
SuperimposeMover
)
set_minimize_and_score_native_pose()
(in
StepWiseRNA_ModelerOptions
)
show()
(in
DnaInterfaceMultiStateDesign
)
save_state()
(in
SwitchChainOrderMover
)
set_minimize_and_score_sugar()
(in
StepWiseRNA_ModelerOptions
)
show()
(in
DnaInterfacePacker
)
save_state()
(in
SwitchResidueTypeSetMover
)
set_minimize_at_end()
(in
FoldTreeHybridize
)
show()
(in
SeparateDnaFromNonDna
)
save_state()
(in
TailsScoreMover
)
set_minimize_res()
(in
TransientCutpointHandler
)
show()
(in
ConformerSwitchMover
)
save_state()
(in
TaskAwareMinMover
)
set_minimize_sf()
(in
FoldTreeHybridize
)
show()
(in
DockMCMCycle
)
save_state()
(in
TorsionDOFMover
)
set_minimize_single_res()
(in
AddMover
)
show()
(in
DockMCMProtocol
)
save_state()
(in
TorsionSetMover
)
set_minimize_single_res()
(in
AddOrDeleteMover
)
show()
(in
DockMinMover
)
save_state()
(in
Tumble
)
set_minimize_single_res()
(in
ResampleMover
)
show()
(in
DockSetupMover
)
save_state()
(in
UniformRotationMover
)
set_minimize_single_res()
(in
StepWiseMasterMover
)
show()
(in
DockingEnsemblePrepackProtocol
)
save_state()
(in
UniformTranslationMover
)
set_minimize_single_res_frequency()
(in
StepWiseMonteCarloOptions
)
show()
(in
DockingHighRes
)
save_state()
(in
VirtualRootMover
)
set_minimize_with_cst()
(in
ShakeStructureMover
)
show()
(in
DockingHighResLegacy
)
save_state()
(in
ddG
)
set_minimizer_options()
(in
SmallMinCCDTrial
)
show()
(in
DockingInitialPerturbation
)
save_state()
(in
AsymFoldandDockMoveRbJumpMover
)
set_minimizer_rename_tag()
(in
StepWiseRNA_ModelerOptions
)
show()
(in
DockingLowRes
)
save_state()
(in
AsymFoldandDockRbTrialMover
)
set_minimizer_use_coordinate_constraints()
(in
RNA_DeNovoProtocol
)
show()
(in
DockingLowResEnsemble
)
save_state()
(in
InitializeByBins
)
set_minmover()
(in
SidechainMinMover
)
show()
(in
DockingPrepackProtocol
)
save_state()
(in
PerturbByBins
)
set_minmover()
(in
SymSidechainMinMover
)
show()
(in
DockingProtocol
)
save_state()
(in
ChiralMover
)
set_minoption()
(in
NormalModeRelaxMover
)
show()
(in
DockingSlideIntoContact
)
save_state()
(in
HbsPatcher
)
set_minor_helix_params()
(in
MakeBundleHelix
)
show()
(in
EllipsoidalRandomizationMover
)
save_state()
(in
OopDPuckMinusMover
)
set_minor_helix_params_from_file()
(in
MakeBundleHelix
)
show()
(in
FaDockingSlideIntoContact
)
save_state()
(in
OopDPuckPlusMover
)
set_minor_helix_params_from_tag()
(in
MakeBundle
)
show()
(in
InterfaceSidechainMinMover
)
save_state()
(in
OopMover
)
set_minorhelix_defaults_from_tag()
(in
MakeBundle
)
show()
(in
SidechainMinMover
)
save_state()
(in
OopPatcher
)
set_mintype()
(in
AnchoredGraftMover
)
show()
(in
TemperedDocking
)
save_state()
(in
OopPuckMinusMover
)
set_missing_dens_as_jump()
(in
FileDataOptions
)
show()
(in
MPDockingMover
)
save_state()
(in
OopPuckPlusMover
)
set_mm_atom_type()
(in
ResidueType
)
show()
(in
MPDockingSetupMover
)
save_state()
(in
OopRandomPuckMover
)
set_mode()
(in
NormalModeRelaxMover
)
show()
(in
SaneDockingProtocol
)
save_state()
(in
OopRandomSmallMover
)
set_model_and_remove_capping_residues()
(in
RNA_HelixAssembler
)
show()
(in
AddAssemblyConstraints
)
save_state()
(in
RationalMonteCarlo
)
set_model_tag()
(in
StepWiseMonteCarlo
)
show()
(in
AssembleLinkerMover
)
save_state()
(in
JumpRotamerSidechainMover
)
set_ModelH3()
(in
AntibodyModelerProtocol
)
show()
(in
CombineChainsMover
)
save_state()
(in
PerturbChiSidechainMover
)
set_modes()
(in
NormalModeMinimizer
)
show()
(in
PostDockAssemblyScorer
)
save_state()
(in
PerturbRotamerSidechainMover
)
set_modes()
(in
NormalModeMultifunc
)
show()
(in
BfactorFittingMover
)
save_state()
(in
SetChiMover
)
set_monte_carlo()
(in
FixedTemperatureController
)
show()
(in
DensityMorphingMover
)
save_state()
(in
SidechainMCMover
)
set_monte_carlo()
(in
HamiltonianExchange
)
show()
(in
ReportFSC
)
save_state()
(in
SidechainMover
)
set_monte_carlo()
(in
MetropolisHastingsMover
)
show()
(in
ScaleMapIntensities
)
save_state()
(in
SidechainMoverBase
)
set_monte_carlo()
(in
ParallelTempering
)
show()
(in
SetupForDensityScoringMover
)
save_state()
(in
DetectSymmetry
)
set_monte_carlo()
(in
SimulatedTempering
)
show()
(in
ClientMover
)
save_state()
(in
ExtractAsymmetricPoseMover
)
set_monte_carlo()
(in
TemperatureController
)
show()
(in
CoMTrackerCM
)
save_state()
(in
ExtractAsymmetricUnitMover
)
set_monte_carlo()
(in
TemperingBase
)
show()
(in
EnvMover
)
save_state()
(in
FaSymDockingSlideTogether
)
set_monte_carlo_cycles()
(in
RNA_DeNovoProtocol
)
show()
(in
ScriptCM
)
save_state()
(in
SetupForSymmetryMover
)
set_motif_library()
(in
LigandMotifSearch
)
show()
(in
CutBiasClaim
)
save_state()
(in
SetupNCSMover
)
set_motif_library()
(in
MotifSearch
)
show()
(in
EnvClaim
)
save_state()
(in
SymDockingInitialPerturbation
)
set_movable_jumps()
(in
DockingProtocol
)
show()
(in
JumpClaim
)
save_state()
(in
SymDockingSlideIntoContact
)
set_movable_jumps()
(in
TemperedDocking
)
show()
(in
TorsionClaim
)
save_state()
(in
SymEnergyCutRotamerTrialsMover
)
set_movable_jumps()
(in
InterfaceTaskOperation
)
show()
(in
VirtResClaim
)
save_state()
(in
SymMinMover
)
set_move()
(in
StepWiseMonteCarlo
)
show()
(in
XYZClaim
)
save_state()
(in
SymPackRotamersMover
)
set_move_element()
(in
StepWiseMove
)
show()
(in
PCA
)
save_state()
(in
SymRotamerTrialsMover
)
set_move_first_rigid_body()
(in
RNA_DeNovoProtocol
)
show()
(in
MultipleDomainMover
)
save_state()
(in
SymShakeStructureMover
)
set_move_first_rigid_body()
(in
RNA_Minimizer
)
show()
(in
RNA_DeNovoProtocol
)
save_state()
(in
SymmetricRMSMover
)
set_move_jump_points_away()
(in
TransientCutpointHandler
)
show()
(in
RNA_FragmentMover
)
save_state()
(in
TaskAwareSymMinMover
)
set_move_jumps_between_chains()
(in
StepWiseProteinMinimizer
)
show()
(in
RNA_LoopCloser
)
save_state()
(in
StepWiseProteinMinimizer
)
set_move_jumps_between_chains()
(in
StepWiseProteinModelerOptions
)
show()
(in
RNA_Minimizer
)
save_state()
(in
StepWiseProteinPoseSetup
)
set_move_map()
(in
CDRsMinPackMin
)
show()
(in
RNA_Relaxer
)
save_state()
(in
StepWiseRNA_PoseSetup
)
set_move_map()
(in
LHRepulsiveRamp
)
show()
(in
ReportToDB
)
save_state()
(in
StepWiseConnectionSampler
)
set_move_map()
(in
DockMCMCycle
)
show()
(in
TrajectoryReportToDB
)
save_state()
(in
StepWiseMinimizer
)
set_move_map()
(in
DockMCMProtocol
)
show()
(in
SetupForFibrilMover
)
save_state()
(in
StepWiseModeler
)
set_move_map()
(in
DockingHighResLegacy
)
show()
(in
BluePrintBDR
)
save_state()
(in
SideChainCopier
)
set_move_map()
(in
SymDockingHiRes
)
show()
(in
CircularPermutation
)
save_state()
(in
StepWisePacker
)
set_move_map_for_centroid_loop()
(in
rosetta.protocols.loops._protocols_loops_
)
show()
(in
MatchResiduesMover
)
save_state()
(in
PolarHydrogenPacker
)
set_move_takeoff_torsions()
(in
StepWiseProteinMinimizer
)
show()
(in
SheetConstraintsRCG
)
save_state()
(in
PrecomputedLibraryMover
)
set_move_type()
(in
StepWiseMove
)
show()
(in
SetAACompositionPotential
)
save_state()
(in
StepWiseProteinBackboneSampler
)
set_moveable_jumps()
(in
DockingHighResFilter
)
show()
(in
SetSecStructEnergies
)
save_state()
(in
StepWiseProteinCCD_Closer
)
set_movemap()
(in
ClassicAbinitio
)
show()
(in
NatbiasHelixPairPotential
)
save_state()
(in
StepWiseProteinCCD_MultiPoseCloser
)
set_movemap()
(in
JumpingFoldConstraintsWrapper
)
show()
(in
FlexPacker
)
save_state()
(in
StepWiseProteinKIC_LoopBridger
)
set_movemap()
(in
KinematicAbinitio
)
show()
(in
FlexPepDockingAbInitio
)
save_state()
(in
BulgeApplyMover
)
set_movemap()
(in
KinematicControl
)
show()
(in
FlexPepDockingLowRes
)
save_state()
(in
BulgeUnApplyMover
)
set_movemap()
(in
MembraneAbinitio
)
show()
(in
FlexPepDockingProtocol
)
save_state()
(in
RNA_ChainClosureChecker
)
set_movemap()
(in
BackrubMover
)
show()
(in
FloppyTailMover
)
save_state()
(in
RNA_HelixAssembler
)
set_movemap()
(in
BackrubProtocol
)
show()
(in
FlxbbDesign
)
save_state()
(in
O2PrimePacker
)
set_movemap()
(in
DnaInterfaceMinMover
)
show()
(in
FlxbbDesignPack
)
save_state()
(in
MultiPhosphateSampler
)
set_movemap()
(in
FloppyTailMover
)
show()
(in
InterlockAroma
)
save_state()
(in
PhosphateMover
)
set_movemap()
(in
FlxbbDesign
)
show()
(in
BDR
)
save_state()
(in
SugarInstantiateMover
)
set_movemap()
(in
BluePrint
)
show()
(in
VarLengthBuild
)
save_state()
(in
SugarVirtualizeMover
)
set_movemap()
(in
KinematicPerturber
)
show()
(in
RemodelConstraintGenerator
)
save_state()
(in
VirtualSugarJustInTimeInstantiator
)
set_movemap()
(in
CartesianMD
)
show()
(in
NonlocalFrags
)
save_state()
(in
VirtualSugarSampler
)
set_movemap()
(in
MDBase
)
show()
(in
TorsionFragmentMover
)
save_state()
(in
VirtualSugarSamplerFromStringList
)
set_movemap()
(in
MoveMapMover
)
show()
(in
GeneralizedKIC
)
save_state()
(in
StepWiseMonteCarlo
)
set_movemap()
(in
NullMover
)
show()
(in
Entity
)
save_state()
(in
AddMover
)
set_movemap()
(in
CartesianNormalModeMover
)
show()
(in
AnchoredGraftMover
)
save_state()
(in
AddOrDeleteMover
)
set_movemap()
(in
NormalModeRelaxMover
)
show()
(in
CCDEndsGraftMover
)
save_state()
(in
DeleteMover
)
set_movemap()
(in
TorsionNormalModeMover
)
show()
(in
GraftMoverBase
)
save_state()
(in
FromScratchMover
)
set_movemap()
(in
RelaxProtocolBase
)
show()
(in
DeleteRegionMover
)
save_state()
(in
ResampleMover
)
set_movemap()
(in
DisulfideInsertionMover
)
show()
(in
InsertPoseIntoPoseMover
)
save_state()
(in
StepWiseMasterMover
)
set_movemap()
(in
FragmentMover
)
show()
(in
KeepRegionMover
)
save_state()
(in
RNA_AddDeleteMonteCarlo
)
set_movemap()
(in
MinMover
)
show()
(in
ReplaceRegionMover
)
save_state()
(in
RNA_O2PrimeMover
)
set_movemap()
(in
SymMinMover
)
show()
(in
BackboneGridSampler
)
save_state()
(in
RNA_TorsionMover
)
set_movemap()
(in
RestrictToMoveMapChiOperation
)
show()
(in
BundleGridSampler
)
save_state()
(in
JumpStepWiseSampler
)
set_movemap_from_kic_segment()
(in
LoopMover_Refine_KIC
)
show()
(in
FitSimpleHelix
)
save_state()
(in
MC_Comb
)
set_movemap_smallmover()
(in
BackrubProtocol
)
show()
(in
MakeBundle
)
save_state()
(in
MC_OneTorsion
)
set_movemaps()
(in
AnchoredGraftMover
)
show()
(in
MakeBundleHelix
)
save_state()
(in
NoOpStepWiseSampler
)
set_movemaps()
(in
CCDEndsGraftMover
)
show()
(in
PerturbBundle
)
save_state()
(in
StepWiseSamplerAny
)
set_movement()
(in
GaussianRBSegmentMover
)
show()
(in
PerturbBundleHelix
)
save_state()
(in
StepWiseSamplerComb
)
set_movement()
(in
HelicalGaussianMover
)
show()
(in
BackboneTorsionPerturbation
)
save_state()
(in
StepWiseSamplerOneTorsion
)
set_movement()
(in
RBSegment
)
show()
(in
BackboneTorsionSampler
)
save_state()
(in
StepWiseSamplerOneValue
)
set_movement()
(in
RBSegmentMover
)
show()
(in
CartesianHybridize
)
save_state()
(in
StepWiseSamplerOneValueComb
)
set_movement()
(in
SequenceShiftMover
)
show()
(in
CartesianSampler
)
save_state()
(in
StepWiseSamplerSized
)
set_movement()
(in
StrandTwistingMover
)
show()
(in
ChunkTrialMover
)
save_state()
(in
StepWiseSamplerSizedAny
)
set_mover()
(in
FragmentCM
)
show()
(in
DomainAssembly
)
save_state()
(in
StepWiseSamplerSizedComb
)
set_mover()
(in
FragmentJumpCM
)
show()
(in
FoldTreeHybridize
)
save_state()
(in
CopyDofStepWiseSampler
)
set_mover()
(in
DesignTask
)
show()
(in
HybridizeProtocol
)
save_state()
(in
ResidueAlternativeStepWiseSampler
)
set_mover()
(in
FilterMover
)
show()
(in
InsertChunkMover
)
save_state()
(in
ResidueAlternativeStepWiseSamplerComb
)
set_mover()
(in
FilterReporterMover
)
show()
(in
MRMover
)
save_state()
(in
ResidueListStepWiseSampler
)
set_mover()
(in
MoverApplyingMover
)
show()
(in
WeightedFragmentSmoothTrialMover
)
save_state()
(in
InputStreamStepWiseSampler
)
set_mover()
(in
ChangeAndResetFoldTreeMover
)
show()
(in
WeightedFragmentTrialMover
)
save_state()
(in
ProteinBetaAntiParallelStepWiseSampler
)
set_mover()
(in
GenericMonteCarloMover
)
show()
(in
IdealizeMover
)
save_state()
(in
ProteinFragmentStepWiseSampler
)
set_mover()
(in
RationalMonteCarlo
)
show()
(in
InnerJob
)
save_state()
(in
ProteinMainChainStepWiseSampler
)
set_mover_cycles()
(in
LoopProtocol
)
show()
(in
Job
)
save_state()
(in
RigidBodyStepWiseSampler
)
set_mover_weight()
(in
TopologyClaimer
)
show()
(in
Batch
)
save_state()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
set_moverkey()
(in
FragmentJumpCM
)
show()
(in
SameStrand
)
save_state()
(in
RigidBodyStepWiseSamplerWithResidueList
)
set_moves()
(in
ClassicAbinitio
)
show()
(in
BalancedKicMover
)
save_state()
(in
RNA_ChiStepWiseSampler
)
set_moves()
(in
MembraneAbinitio
)
show()
(in
KicMover
)
save_state()
(in
RNA_KIC_Sampler
)
set_moving_partition_res()
(in
MultiPhosphateSampler
)
show()
(in
AddHydrogen
)
save_state()
(in
RNA_KinematicCloser
)
set_moving_res()
(in
StepWiseBasicWorkingParameters
)
show()
(in
AddHydrogens
)
save_state()
(in
RNA_MC_MultiSuite
)
set_moving_res_and_reset()
(in
StepWiseModeler
)
show()
(in
CompoundTranslate
)
save_state()
(in
RNA_MC_Sugar
)
set_moving_res_list()
(in
StepWiseModeler
)
show()
(in
ComputeLigandRDF
)
save_state()
(in
RNA_MC_Suite
)
set_moving_residues()
(in
StepWiseProteinBackboneSampler
)
show()
(in
FinalMinimizer
)
save_state()
(in
RNA_NucleosideStepWiseSampler
)
set_mpi_rank()
(in
SimulateMPI
)
show()
(in
GrowLigand
)
save_state()
(in
RNA_SugarStepWiseSampler
)
set_mulfactor()
(in
StructAvrgMover
)
show()
(in
HighResDocker
)
save_state()
(in
RNA_SuiteStepWiseSampler
)
set_multicomponent_info()
(in
SymmetryInfo
)
show()
(in
InterfaceScoreCalculator
)
save_state()
(in
StepWiseCSA_JobDistributor
)
set_multifunc()
(in
WrapperOptEMultifunc
)
show()
(in
LigandDesign
)
save_state()
(in
StepWiseJobDistributor
)
set_multiple_origin()
(in
NonPlaidFingerprint
)
show()
(in
MinimizeBackbone
)
save_state()
(in
StepWiseMonteCarloJobDistributor
)
set_must_switch_bins()
(in
GeneralizedKICperturber
)
show()
(in
MinimizeLigand
)
save_state()
(in
CentroidRelaxMover
)
set_must_switch_bins()
(in
PerturbByBins
)
show()
(in
RandomConformerMover
)
save_state()
(in
FullatomRelaxMover
)
set_mut_aa()
(in
DDGMutationOptEData
)
show()
(in
RandomConformers
)
save_state()
(in
SurfaceDockingProtocol
)
set_mut_unfolded_energies_emap()
(in
NestedEnergyTermDDGMutationOptEData
)
show()
(in
RigidSearchMover
)
save_state()
(in
SurfaceOrientMover
)
set_mutate_to_glycine()
(in
RepulsiveOnlyMover
)
show()
(in
Rotate
)
save_state()
(in
SymDockBaseProtocol
)
set_mutation_rate()
(in
DiscreteRandomizer
)
show()
(in
Rotates
)
save_state()
(in
SymDockProtocol
)
set_mutation_rate()
(in
EntityRandomizer
)
show()
(in
SlideTogether
)
save_state()
(in
SymDockingHiRes
)
set_mutation_rate()
(in
Mutate1Randomizer
)
show()
(in
StartFrom
)
save_state()
(in
SymDockingLowRes
)
set_mutation_rate()
(in
PositionSpecificRandomizer
)
show()
(in
TetherLigand
)
save_state()
(in
SymFoldandDockMoveRbJumpMover
)
set_mutation_sets()
(in
MutationSetDesignOperation
)
show()
(in
Transform
)
save_state()
(in
SymFoldandDockRbTrialMover
)
set_n_atom()
(in
DecoySetEvaluation
)
show()
(in
Translate
)
save_state()
(in
SymFoldandDockSlideTrialMover
)
set_n_bins()
(in
BinTransitionData
)
show()
(in
UnconstrainedTorsionsMover
)
save_state()
(in
SymInterfaceSidechainMinMover
)
set_n_chi_bins()
(in
SingleResidueDunbrackLibrary
)
show()
(in
WriteLigandMolFile
)
save_state()
(in
SymSidechainMinMover
)
set_n_chi_bins()
(in
SingleResiduePeptoidLibrary
)
show()
(in
LoopBuildMover
)
save_state()
(in
MPSymDockMover
)
set_n_closure_attempts_is_a_maximum()
(in
GeneralizedKIC
)
show()
(in
LoopmodelWrapper
)
save_state()
(in
AlignPoseToInvrotTreeMover
)
set_n_downstream_to_output()
(in
WriteUpstreamCoordinateKinemage
)
show()
(in
LoopBuilder
)
save_state()
(in
StoreCombinedStoredTasksMover
)
set_n_geomcst()
(in
WriteKinemageOutputter
)
show()
(in
LoopModeler
)
save_state()
(in
StoreCompoundTaskMover
)
set_n_geometric_constraints()
(in
MatchCounter
)
show()
(in
LoopMover
)
save_state()
(in
StoreTaskMover
)
set_n_geometric_constraints()
(in
Matcher
)
show()
(in
LoopProtocol
)
save_state()
(in
UnfoldedStateEnergyCalculatorMover
)
set_n_geometric_constraints()
(in
DownstreamRMSEvaluator
)
show()
(in
MinimizationRefiner
)
save_status()
(in
HedgeArchive
)
set_n_geometric_constraints()
(in
LimitHitsPerRotamerFilter
)
show()
(in
RepackingRefiner
)
save_status()
(in
IterativeAbrelax
)
set_n_geometric_constraints()
(in
SameChiBinComboGrouper
)
show()
(in
RotamerTrialsRefiner
)
save_status()
(in
IterativeBase
)
set_n_geometric_constraints()
(in
SameRotamerComboGrouper
)
show()
(in
LegacyKicSampler
)
save_status()
(in
IterativeCentroid
)
set_n_geometric_constraints()
(in
SameSequenceAndDSPositionGrouper
)
show()
(in
AcceptanceCheck
)
save_status()
(in
IterativeFullatom
)
set_n_geometric_constraints()
(in
SameSequenceGrouper
)
show()
(in
LoopFilter
)
save_status()
(in
AbstractArchiveBase
)
set_n_helices()
(in
BundleParametersSet
)
show()
(in
LoopMoverGroup
)
save_status()
(in
ArchiveBase
)
set_n_mainchain_torsions_i()
(in
BinTransitionData
)
show()
(in
PrepareForCentroid
)
save_status()
(in
EvaluatedArchive
)
set_n_mainchain_torsions_iplus1()
(in
BinTransitionData
)
show()
(in
PrepareForFullatom
)
save_status()
(in
NormalizedEvaluatedArchive
)
set_n_max_cluster()
(in
ClusterPhilStyle
)
show()
(in
FastGapMover
)
save_status()
(in
VarianceStatisticsArchive
)
set_n_sample()
(in
StepWiseProteinModelerOptions
)
show()
(in
LoopHashDiversifier
)
save_times()
(in
StepWiseMonteCarloOptions
)
set_n_sample()
(in
StepWiseProteinBackboneSampler
)
show()
(in
LoopHashLibrary
)
save_to_file()
(in
HedgeArchive
)
set_n_sample()
(in
StepWiseMonteCarloOptions
)
show()
(in
LoopHashLibraryOptions
)
save_to_file()
(in
IterativeAbrelax
)
set_n_samples_per_side_of_nrchi_bin()
(in
SampleStrategyData
)
show()
(in
LoopHashMoverWrapper
)
save_to_file()
(in
IterativeBase
)
set_n_samples_wi_sd_range()
(in
SampleStrategyData
)
show()
(in
LoopHashRelaxProtocol
)
save_to_file()
(in
IterativeCentroid
)
set_n_to_output_per_group()
(in
MatchConsolidator
)
show()
(in
Mover_LoopHashRefine
)
save_to_file()
(in
IterativeFullatom
)
set_name()
(in
RDAT
)
show()
(in
FoldTreeFromLoops
)
save_to_file()
(in
AbstractArchiveBase
)
set_name()
(in
AbstractArchiveBase
)
show()
(in
Loop
)
save_to_file()
(in
ArchiveBase
)
set_name()
(in
SmallMol
)
show()
(in
LoopsFileOptions
)
save_to_file()
(in
EvaluatedArchive
)
set_name1()
(in
ResidueSelector
)
show()
(in
CCDLoopClosureMover
)
save_to_file()
(in
NormalizedEvaluatedArchive
)
set_names()
(in
DecomposeAndReweightEnergiesCalculator
)
show()
(in
FASelectSlidingWindowLoopClosure
)
save_to_file()
(in
VarianceStatisticsArchive
)
set_natbias_helices_sheet_pot()
(in
NatbiasSecondaryStructureEnergy
)
show()
(in
RamaCheck1B
)
save_trial_number_to_checkpoint()
(in
GenericMonteCarloMover
)
set_natbias_hpairpot()
(in
NatbiasSecondaryStructureEnergy
)
show()
(in
RamaCheck2B
)
SaveAndRetrieveSidechains
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_natbias_spairpot()
(in
NatbiasSecondaryStructureEnergy
)
show()
(in
RamaCheckBase
)
SaveAndRetrieveSidechainsAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_native()
(in
Templates
)
show()
(in
SlidingWindowLoopClosure
)
SaveAndRetrieveSidechainsCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_native()
(in
PerNativeRRReporterHuman
)
show()
(in
WidthFirstSlidingWindowLoopClosure
)
SaveAndRetrieveSidechainsCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_native_aa()
(in
PNatAAOptEPositionData
)
show()
(in
KinematicMover
)
SaveAndRetrieveSidechainsCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_native_alignment()
(in
StepWiseWorkingParameters
)
show()
(in
KinematicWrapper
)
SaveAndRetrieveSidechainsCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_native_alignment_res()
(in
StepWiseWorkingParametersSetup
)
show()
(in
LoopCM
)
saved_accept_file_name()
(in
GenericMonteCarloMover
)
set_native_chi_periodicity()
(in
PNatRotOptEPositionData
)
show()
(in
LoopMover_Perturb_CCD
)
saved_reference_pose()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_native_edensity_score_cutoff()
(in
StepWiseRNA_ModelerOptions
)
show()
(in
LoopMover_Perturb_KIC
)
saved_trial_number_file()
(in
GenericMonteCarloMover
)
set_native_flag()
(in
ProteinUpstreamBuilder
)
show()
(in
LoopMover_Refine_CCD
)
saveGDB()
(in
GDB
)
set_native_in_mover()
(in
rosetta.protocols.jd2._protocols_jd2_
)
show()
(in
LoopMover_Refine_KIC
)
SavePoseConstraintToFileFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
RotamerDumpMover
)
show()
(in
LoopRefineInnerCycle
)
SavePoseConstraintToFileFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
AbrelaxMover
)
show()
(in
LoopRefineInnerCycleContainer
)
SavePoseConstraintToFileFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
ClassicAbinitio
)
show()
(in
RepackTrial
)
SavePoseConstraintToFileFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
ConstraintFragmentSampler
)
show()
(in
ShearMinCCDTrial
)
SavePoseConstraintToFileFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
DomainAssembly
)
show()
(in
SmallMinCCDTrial
)
SavePoseConstraintToFileFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
DoubleLayerKinematicAbinitio
)
show()
(in
MakeRotLibMover
)
SavePoseMover
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_native_pose()
(in
FoldConstraints
)
show()
(in
RotData
)
SavePoseMoverAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_native_pose()
(in
FragmentSampler
)
show()
(in
MatcherMover
)
SavePoseMoverCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_native_pose()
(in
JumpingFoldConstraintsWrapper
)
show()
(in
MatchScoreWriter
)
SavePoseMoverCreator
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_native_pose()
(in
KinematicAbinitio
)
show()
(in
ExtractSubposeMover
)
SavePoseMoverCreatorAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_native_pose()
(in
KinematicTaskControl
)
show()
(in
MatDesGreedyOptMutationMover
)
SavePoseMoverCreatorCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_native_pose()
(in
LoopJumpFoldCst
)
show()
(in
SchemePlaceMotifsMover
)
SaveResfileToDiskFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
MembraneAbinitio
)
show()
(in
SymDofMover
)
SaveResfileToDiskFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
Protocol
)
show()
(in
CartesianMD
)
SaveResfileToDiskFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
ResolutionSwitcher
)
show()
(in
MDBase
)
SaveResfileToDiskFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
AbscriptLoopCloserCM
)
show()
(in
MedalExchangeMover
)
SaveResfileToDiskFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
AbscriptMover
)
show()
(in
MedalMover
)
SaveResfileToDiskFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
AbscriptStageMover
)
show()
(in
AddMPLigandMover
)
saveState()
(in
RandomGenerator
)
set_native_pose()
(in
ConstraintPreparer
)
show()
(in
AddMembraneMover
)
saveState()
(in
mt19937_RG
)
set_native_pose()
(in
FragmentCM
)
show()
(in
FlipMover
)
saveState()
(in
standard_RG
)
set_native_pose()
(in
FragmentJumpCM
)
show()
(in
MembranePositionFromTopologyMover
)
saveState()
(in
uniform_RG
)
set_native_pose()
(in
RigidChunkCM
)
show()
(in
RandomPositionRotationMover
)
SAXS
(in
rosetta.basic
)
set_native_pose()
(in
StagePreparer
)
show()
(in
RandomPositionTranslationMover
)
SAXS
(in
ProfTag
)
set_native_pose()
(in
StructPerturberCM
)
show()
(in
RotationMover
)
SAXS
(in
rosetta.basic._basic_
)
set_native_pose()
(in
InterfaceAnalyzerMover
)
show()
(in
SetMembraneCenterMover
)
saxs
(in
rosetta.core.scoring
)
set_native_pose()
(in
LoopAnalyzerMover
)
show()
(in
SetMembraneNormalMover
)
saxs
(in
rosetta.protocols.scoring.methods
)
set_native_pose()
(in
PackStatMover
)
show()
(in
SetMembranePositionMover
)
saxs_cen_score
(in
ScoreType
)
set_native_pose()
(in
AnchoredDesignMover
)
show()
(in
TransformIntoMembraneMover
)
saxs_cen_score
(in
rosetta.core.scoring._core_scoring_
)
set_native_pose()
(in
AnchoredPerturbMover
)
show()
(in
TranslationMover
)
saxs_cen_score
(in
rosetta.core.scoring
)
set_native_pose()
(in
AnchoredRefineMover
)
show()
(in
TranslationRotationMover
)
saxs_cen_score
(in
rosetta
)
set_native_pose()
(in
AntibodyModelerProtocol
)
show()
(in
Embedding
)
saxs_fa_score
(in
ScoreType
)
set_native_pose()
(in
CDRsMinPackMin
)
show()
(in
EmbeddingDef
)
saxs_fa_score
(in
rosetta.core.scoring._core_scoring_
)
set_native_pose()
(in
CloseOneCDRLoop
)
show()
(in
LipoFileOptions
)
saxs_fa_score
(in
rosetta.core.scoring
)
set_native_pose()
(in
GraftCDRLoopsProtocol
)
show()
(in
SpanFileOptions
)
saxs_fa_score
(in
rosetta
)
set_native_pose()
(in
GraftOneCDRLoop
)
show()
(in
SymmetricAddMembraneMover
)
saxs_score
(in
ScoreType
)
set_native_pose()
(in
GraftedStemOptimizer
)
show()
(in
VisualizeEmbeddingMover
)
saxs_score
(in
rosetta.core.scoring._core_scoring_
)
set_native_pose()
(in
H3CterInsert
)
show()
(in
VisualizeMembraneMover
)
saxs_score
(in
rosetta.core.scoring
)
set_native_pose()
(in
H3PerturbCCD
)
show()
(in
ZincHeterodimerMover
)
saxs_score
(in
rosetta
)
set_native_pose()
(in
H3RefineCCD
)
show()
(in
MotifGraftMover
)
SAXSEnergy
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
LHRepulsiveRamp
)
show()
(in
MotifDnaPacker
)
SAXSEnergyAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
ModelCDRH3
)
show()
(in
CompositionMover
)
SAXSEnergyCAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
RefineBetaBarrel
)
show()
(in
CycleMover
)
SAXSEnergyCEN
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
RefineOneCDRLoop
)
show()
(in
CyclicMover
)
SAXSEnergyCENAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
RefineOneCDRLoopCentroid
)
show()
(in
DsspMover
)
SAXSEnergyCENCAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
CDRDihedralConstraintMover
)
show()
(in
FilterMover
)
SAXSEnergyCreator
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
ParatopeEpitopeSiteConstraintMover
)
show()
(in
FilterReporterMover
)
SAXSEnergyCreatorAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
ParatopeSiteConstraintMover
)
show()
(in
IfMover
)
SAXSEnergyCreatorCAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
AntibodyDesignMover
)
show()
(in
IteratedConvergenceMover
)
SAXSEnergyCreatorCEN
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
AntibodyDesignProtocol
)
show()
(in
JumpOutMover
)
SAXSEnergyCreatorCENAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
MutateFrameworkForCluster
)
show()
(in
MCShowMover
)
SAXSEnergyCreatorCENCAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
AntibodyModeler
)
show()
(in
MonteCarloUtil
)
SAXSEnergyCreatorFA
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
CDRH3Modeler
)
show()
(in
MoveMapMover
)
SAXSEnergyCreatorFAAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
CloseOneMover
)
show()
(in
Mover
)
SAXSEnergyCreatorFACAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
GraftMover
)
show()
(in
MoverApplyingMover
)
SAXSEnergyFA
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
GraftOneMover
)
show()
(in
MoverContainer
)
SAXSEnergyFAAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
LoopRlxMover
)
show()
(in
MoverForPoseList
)
SAXSEnergyFACAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_native_pose()
(in
BackrubMover
)
show()
(in
NullMover
)
SAXSScoreFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
BackrubProtocol
)
show()
(in
PDBDumpMover
)
SAXSScoreFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
BackrubSidechainMover
)
show()
(in
ProfilerMover
)
SAXSScoreFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_native_pose()
(in
CanonicalSamplingMover
)
show()
(in
PyMolMover
)
sbisect()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
set_native_pose()
(in
FixedTemperatureController
)
show()
(in
RampingMover
)
sc
(in
rosetta.core.scoring
)
set_native_pose()
(in
MetricRecorder
)
show()
(in
RandomMover
)
SC_BB
(in
rosetta.core.scoring.motif
)
set_native_pose()
(in
MetropolisHastingsMover
)
show()
(in
RepeatMover
)
SC_BB
(in
RPM_Type
)
set_native_pose()
(in
ParallelTempering
)
show()
(in
SequenceMover
)
SC_BB
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
set_native_pose()
(in
ProgressBarObserver
)
show()
(in
StructureRestrictor
)
sc_bounding_sphere()
(in
SymmOnTheFlyNode
)
set_native_pose()
(in
SidechainMetropolisHastingsMover
)
show()
(in
TrialCounter
)
SC_BRANCH_POINT
(in
rosetta
)
set_native_pose()
(in
SimulatedTempering
)
show()
(in
TrialMover
)
SC_BRANCH_POINT
(in
rosetta.core.chemical
)
set_native_pose()
(in
TemperatureController
)
show()
(in
UDPSocketClient
)
SC_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
set_native_pose()
(in
TemperingBase
)
show()
(in
VectorPoseMover
)
SC_BRANCH_POINT
(in
VariantType
)
set_native_pose()
(in
ThermodynamicMover
)
show()
(in
WhileMover
)
SC_FRAGMENT
(in
rosetta
)
set_native_pose()
(in
ThermodynamicObserver
)
show()
(in
StructAvrgMover
)
SC_FRAGMENT
(in
rosetta.core.chemical
)
set_native_pose()
(in
TrialCounterObserver
)
show()
(in
NcbbDockDesignProtocol
)
SC_FRAGMENT
(in
rosetta.core.chemical._core_chemical_
)
set_native_pose()
(in
AssignToClustersMover
)
show()
(in
OopCreatorMover
)
SC_FRAGMENT
(in
VariantType
)
set_native_pose()
(in
ClusterBase
)
show()
(in
OopDockDesignProtocol
)
sc_H_orbital()
(in
OrbitalsStatistics
)
set_native_pose()
(in
ClusterPhilStyle
)
show()
(in
CartesianNormalModeMover
)
sc_min()
(in
DockingHighRes
)
set_native_pose()
(in
ClusterPhilStyle_Loop
)
show()
(in
NormalModeMinimizer
)
sc_min()
(in
DockingHighResLegacy
)
set_native_pose()
(in
ClusterPhilStyle_PoseReporter
)
show()
(in
NormalModeRelaxMover
)
SC_ONLY
(in
FlexbbInteractionGraph
)
set_native_pose()
(in
EnsembleConstraints
)
show()
(in
TorsionNormalModeMover
)
SC_ONLY
(in
Subsitution
)
set_native_pose()
(in
EnsembleConstraints_Simple
)
show()
(in
SetupPoissonBoltzmannPotential
)
sc_only()
(in
HotspotStubSet
)
set_native_pose()
(in
GatherPosesMover
)
show()
(in
PocketConstraint
)
sc_only()
(in
TaskAwareSASAFilter
)
set_native_pose()
(in
CoarseRNA_LoopCloser
)
show()
(in
AddChainBreak
)
SC_ORBITALS
(in
rosetta
)
set_native_pose()
(in
ExtraThreadingMover
)
show()
(in
AddSidechainConstraintsToHotspots
)
SC_ORBITALS
(in
rosetta.core.chemical
)
set_native_pose()
(in
LoopRelaxMover
)
show()
(in
BackrubDDMover
)
SC_ORBITALS
(in
ResidueProperty
)
set_native_pose()
(in
LoopRelaxThreadingMover
)
show()
(in
BestHotspotCstMover
)
SC_ORBITALS
(in
rosetta.core.chemical._core_chemical_
)
set_native_pose()
(in
MultiThreadingMover
)
show()
(in
BuildAlaPose
)
SC_PH
(in
rosetta.core.scoring.motif
)
set_native_pose()
(in
PartialThreadingMover
)
show()
(in
DesignMinimizeHbonds
)
SC_PH
(in
RPM_Type
)
set_native_pose()
(in
RecoverSideChainsMover
)
show()
(in
DisulfideMover
)
SC_PH
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
set_native_pose()
(in
StealLigandMover
)
show()
(in
DockAndRetrieveSidechains
)
SC_PO
(in
rosetta.core.scoring.motif
)
set_native_pose()
(in
StealSideChainsMover
)
show()
(in
DockWithHotspotMover
)
SC_PO
(in
RPM_Type
)
set_native_pose()
(in
ThreadingMover
)
show()
(in
FavorNativeResiduePreCycle
)
SC_PO
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
set_native_pose()
(in
ContactMap
)
show()
(in
FavorNonNativeResiduePreCycle
)
sc_sc
(in
ResiduePairEvalType
)
set_native_pose()
(in
FitBfactorsMover
)
show()
(in
HotspotDisjointedFoldTreeMover
)
sc_sc
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_native_pose()
(in
LoadDensityMapMover
)
show()
(in
HotspotHasherMover
)
sc_sc
(in
rosetta.core.pack.interaction_graph
)
set_native_pose()
(in
RecomputeDensityMapMover
)
show()
(in
InterfaceRecapitulationMover
)
SC_SC
(in
rosetta.core.scoring.motif
)
set_native_pose()
(in
SetCrystWeightMover
)
show()
(in
LoopFinder
)
SC_SC
(in
RPM_Type
)
set_native_pose()
(in
SetRefinementOptionsMover
)
show()
(in
LoopLengthChange
)
SC_SC
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
set_native_pose()
(in
TagPoseWithRefinementStatsMover
)
show()
(in
LoopMoverFromCommandLine
)
sc_whole
(in
ResiduePairEvalType
)
set_native_pose()
(in
UpdateSolventMover
)
show()
(in
LoopOver
)
sc_whole
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_native_pose()
(in
CreateAngleConstraint
)
show()
(in
LoopRemodel
)
sc_whole
(in
rosetta.core.pack.interaction_graph
)
set_native_pose()
(in
CreateDistanceConstraint
)
show()
(in
MapHotspot
)
scaf_name()
(in
PDBWriter
)
set_native_pose()
(in
CreateTorsionConstraint
)
show()
(in
PatchdockTransform
)
scaffold_build_id()
(in
Hit
)
set_native_pose()
(in
DeclareBond
)
show()
(in
PeptideStapleDesignMover
)
scaffold_build_id()
(in
upstream_hit
)
set_native_pose()
(in
PeptideStubMover
)
show()
(in
PlaceOnLoop
)
ScaffoldBuildPoint
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
set_native_pose()
(in
ddGMover
)
show()
(in
PlaceSimultaneouslyMover
)
ScaffoldBuildPointAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
set_native_pose()
(in
GreedyOptMutationMover
)
show()
(in
PlaceStubMover
)
ScaffoldBuildPointCAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
set_native_pose()
(in
ParetoOptMutationMover
)
show()
(in
PlacementAuctionMover
)
ScalarWeightedFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_native_pose()
(in
DesignProteinBackboneAroundDNA
)
show()
(in
PlacementMinimizationMover
)
ScalarWeightedFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_native_pose()
(in
DnaInterfaceMinMover
)
show()
(in
PrepackMover
)
ScalarWeightedFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_native_pose()
(in
DnaInterfaceMultiStateDesign
)
show()
(in
ProteinInterfaceMultiStateDesignMover
)
scale()
(in
AminoAcidNeighborSparseMatrix_T_float_T
)
set_native_pose()
(in
DnaInterfacePacker
)
show()
(in
RandomMutation
)
scale_axis_stagger()
(in
RNA_FilteredBaseBaseInfo
)
set_native_pose()
(in
SeparateDnaFromNonDna
)
show()
(in
RepackMinimize
)
scale_factor()
(in
GenBornResidueInfo
)
set_native_pose()
(in
ConformerSwitchMover
)
show()
(in
SaveAndRetrieveSidechains
)
scale_factor()
(in
SidechainContactDistCutoff
)
set_native_pose()
(in
DockMCMCycle
)
show()
(in
SetAtomTree
)
scale_inneriterations()
(in
SimAnnealerBase
)
set_native_pose()
(in
DockMCMProtocol
)
show()
(in
SetTemperatureFactor
)
scale_outeriterations()
(in
SimAnnealerBase
)
set_native_pose()
(in
DockMinMover
)
show()
(in
SetupHotspotConstraintsLoopsMover
)
scaleIntensities()
(in
ElectronDensity
)
set_native_pose()
(in
DockSetupMover
)
show()
(in
SetupHotspotConstraintsMover
)
ScaleMapIntensities
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
set_native_pose()
(in
DockingEnsemblePrepackProtocol
)
show()
(in
ShoveResidueMover
)
ScaleMapIntensitiesAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
set_native_pose()
(in
DockingHighRes
)
show()
(in
SpinMover
)
ScaleMapIntensitiesCAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
set_native_pose()
(in
DockingHighResLegacy
)
show()
(in
SubroutineMover
)
ScaleMapIntensitiesCreator
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
set_native_pose()
(in
DockingInitialPerturbation
)
show()
(in
TaskAwareCsts
)
ScaleMapIntensitiesCreatorAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
set_native_pose()
(in
DockingLowRes
)
show()
(in
TopologyBrokerMover
)
ScaleMapIntensitiesCreatorCAP
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
set_native_pose()
(in
DockingLowResEnsemble
)
show()
(in
TryRotamers
)
scaling()
(in
SetTemperatureFactor
)
set_native_pose()
(in
DockingPrepackProtocol
)
show()
(in
VLB
)
SCAN
(in
rosetta.core.pack.task._core_pack_task_
)
set_native_pose()
(in
DockingProtocol
)
show()
(in
AutoRBMover
)
scan()
(in
ArithmeticScanner
)
set_native_pose()
(in
DockingSlideIntoContact
)
show()
(in
FragInsertAndAlignMover
)
SCANAP
(in
rosetta.core.pack.task._core_pack_task_
)
set_native_pose()
(in
EllipsoidalRandomizationMover
)
show()
(in
GaussianRBSegmentMover
)
SCANCAP
(in
rosetta.core.pack.task._core_pack_task_
)
set_native_pose()
(in
FaDockingSlideIntoContact
)
show()
(in
HelicalGaussianMover
)
scfxn_rules_for_energy()
(in
OrbitalsScore
)
set_native_pose()
(in
InterfaceSidechainMinMover
)
show()
(in
IdealizeHelicesMover
)
scfxn_rules_for_weight()
(in
OrbitalsScore
)
set_native_pose()
(in
SidechainMinMover
)
show()
(in
MakeStarTopologyMover
)
Scheduler
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_native_pose()
(in
TemperedDocking
)
show()
(in
OptimizeThreadingMover
)
SchedulerAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_native_pose()
(in
MPDockingMover
)
show()
(in
RBSegmentMover
)
SchedulerCAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_native_pose()
(in
MPDockingSetupMover
)
show()
(in
RBSegmentRelax
)
Schema
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
set_native_pose()
(in
SaneDockingProtocol
)
show()
(in
SequenceShiftMover
)
schema()
(in
AntibodyFeatures
)
set_native_pose()
(in
AddAssemblyConstraints
)
show()
(in
StrandTwistingMover
)
schema()
(in
CDRClusterFeatures
)
set_native_pose()
(in
AssembleLinkerMover
)
show()
(in
AtomCoordinateCstMover
)
schema()
(in
AtomAtomPairFeatures
)
set_native_pose()
(in
CombineChainsMover
)
show()
(in
CentroidRelax
)
schema()
(in
AtomInResidueAtomInResiduePairFeatures
)
set_native_pose()
(in
PostDockAssemblyScorer
)
show()
(in
ClassicRelax
)
schema()
(in
AtomTypesFeatures
)
set_native_pose()
(in
BfactorFittingMover
)
show()
(in
FastRelax
)
schema()
(in
BetaTurnDetectionFeatures
)
set_native_pose()
(in
DensityMorphingMover
)
show()
(in
LocalRelax
)
schema()
(in
ChargeChargeFeatures
)
set_native_pose()
(in
ReportFSC
)
show()
(in
MiniRelax
)
schema()
(in
DdGFeatures
)
set_native_pose()
(in
ScaleMapIntensities
)
show()
(in
RelaxProtocolBase
)
schema()
(in
FeaturesReporter
)
set_native_pose()
(in
SetupForDensityScoringMover
)
show()
(in
MPFastRelaxMover
)
schema()
(in
GeometricSolvationFeatures
)
set_native_pose()
(in
ClientMover
)
show()
(in
MembraneCenterPerturbationMover
)
schema()
(in
HBondFeatures
)
set_native_pose()
(in
CoMTrackerCM
)
show()
(in
MembraneNormalPerturbationMover
)
schema()
(in
HBondParameterFeatures
)
set_native_pose()
(in
EnvMover
)
show()
(in
MovePoseToMembraneCenterMover
)
schema()
(in
HelixCapFeatures
)
set_native_pose()
(in
ScriptCM
)
show()
(in
RigidBodyDeterministicSpinMover
)
schema()
(in
InterfaceFeatures
)
set_native_pose()
(in
MultipleDomainMover
)
show()
(in
RigidBodyDofPerturbMover
)
schema()
(in
JobDataFeatures
)
set_native_pose()
(in
RNA_DeNovoProtocol
)
show()
(in
RigidBodyDofRandomTransMover
)
schema()
(in
LoopAnchorFeatures
)
set_native_pose()
(in
RNA_FragmentMover
)
show()
(in
RigidBodyDofRandomizeMover
)
schema()
(in
OrbitalsFeatures
)
set_native_pose()
(in
RNA_LoopCloser
)
show()
(in
RigidBodyDofSeqPerturbMover
)
schema()
(in
PairFeatures
)
set_native_pose()
(in
RNA_Minimizer
)
show()
(in
RigidBodyDofSeqRandomizeMover
)
schema()
(in
PdbDataFeatures
)
set_native_pose()
(in
RNA_Relaxer
)
show()
(in
RigidBodyDofSeqTransMover
)
schema()
(in
PoseCommentsFeatures
)
set_native_pose()
(in
ReportToDB
)
show()
(in
RigidBodyDofTransMover
)
schema()
(in
PoseConformationFeatures
)
set_native_pose()
(in
TrajectoryReportToDB
)
show()
(in
RigidBodyMotionMover
)
schema()
(in
ProteinBackboneAtomAtomPairFeatures
)
set_native_pose()
(in
SetupForFibrilMover
)
show()
(in
RigidBodyMover
)
schema()
(in
ProteinBackboneTorsionAngleFeatures
)
set_native_pose()
(in
BluePrintBDR
)
show()
(in
RigidBodyPerturbMover
)
schema()
(in
ProteinBondGeometryFeatures
)
set_native_pose()
(in
CircularPermutation
)
show()
(in
RigidBodyPerturbNoCenterMover
)
schema()
(in
ProteinRMSDFeatures
)
set_native_pose()
(in
MatchResiduesMover
)
show()
(in
RigidBodyPerturbRandomJumpMover
)
schema()
(in
ProteinRMSDNoSuperpositionFeatures
)
set_native_pose()
(in
SheetConstraintsRCG
)
show()
(in
RigidBodyRandomizeMover
)
schema()
(in
ProteinResidueConformationFeatures
)
set_native_pose()
(in
SetAACompositionPotential
)
show()
(in
RigidBodySpinMover
)
schema()
(in
RadiusOfGyrationFeatures
)
set_native_pose()
(in
SetSecStructEnergies
)
show()
(in
RigidBodyTransMover
)
schema()
(in
ResidueBurialFeatures
)
set_native_pose()
(in
FlexPacker
)
show()
(in
RollMover
)
schema()
(in
ResidueConformationFeatures
)
set_native_pose()
(in
FlexPepDockingAbInitio
)
show()
(in
RotateJumpAxisMover
)
schema()
(in
ResidueFeatures
)
set_native_pose()
(in
FlexPepDockingLowRes
)
show()
(in
UniformRigidBodyCM
)
schema()
(in
ResidueGridScoresFeatures
)
set_native_pose()
(in
FlexPepDockingProtocol
)
show()
(in
UniformRigidBodyMover
)
schema()
(in
ResidueScoresFeatures
)
set_native_pose()
(in
FloppyTailMover
)
show()
(in
UniformSphereTransMover
)
schema()
(in
ResidueSecondaryStructureFeatures
)
set_native_pose()
(in
FlxbbDesign
)
show()
(in
WholeBodyRotationMover
)
schema()
(in
ResidueTotalScoresFeatures
)
set_native_pose()
(in
FlxbbDesignPack
)
show()
(in
WholeBodyTranslationMover
)
schema()
(in
ResidueTypesFeatures
)
set_native_pose()
(in
InterlockAroma
)
show()
(in
AdditionalOutputWrapper
)
schema()
(in
RotamerBoltzmannWeightFeatures
)
set_native_pose()
(in
BDR
)
show()
(in
MultipleOutputWrapper
)
schema()
(in
RotamerFeatures
)
set_native_pose()
(in
VarLengthBuild
)
show()
(in
MultiplePoseMover
)
schema()
(in
RotamerRecoveryFeatures
)
set_native_pose()
(in
RemodelConstraintGenerator
)
show()
(in
ParsedProtocol
)
schema()
(in
RuntimeFeatures
)
set_native_pose()
(in
NonlocalFrags
)
show()
(in
SavePoseMover
)
schema()
(in
SaltBridgeFeatures
)
set_native_pose()
(in
TorsionFragmentMover
)
show()
(in
PerNativeRRReporterHuman
)
schema()
(in
ScoreFunctionFeatures
)
set_native_pose()
(in
GeneralizedKIC
)
show()
(in
RRReporter
)
schema()
(in
ScoreTypeFeatures
)
set_native_pose()
(in
AnchoredGraftMover
)
show()
(in
RRReporterHuman
)
schema()
(in
ScreeningFeatures
)
set_native_pose()
(in
CCDEndsGraftMover
)
show()
(in
RRReporterSQLite
)
schema()
(in
SecondaryStructureSegmentFeatures
)
set_native_pose()
(in
GraftMoverBase
)
show()
(in
RRReporterSimple
)
schema()
(in
SmotifFeatures
)
set_native_pose()
(in
DeleteRegionMover
)
show()
(in
RotamerRecovery
)
schema()
(in
StructureFeatures
)
set_native_pose()
(in
InsertPoseIntoPoseMover
)
show()
(in
RotamerRecoveryMover
)
schema()
(in
StructureScoresFeatures
)
set_native_pose()
(in
KeepRegionMover
)
show()
(in
Interface
)
schema()
(in
TaskOperationFeatures
)
set_native_pose()
(in
ReplaceRegionMover
)
show()
(in
ResidualDipolarCouplingRigidSegments
)
schema()
(in
TotalScoreFeatures
)
set_native_pose()
(in
BackboneGridSampler
)
show()
(in
CAcstGenerator
)
schema()
(in
TrajectoryMapFeatures
)
set_native_pose()
(in
BundleGridSampler
)
show()
(in
CloseFold
)
schema()
(in
UnrecognizedAtomFeatures
)
set_native_pose()
(in
FitSimpleHelix
)
show()
(in
CoordinateCst
)
schema()
(in
WaterFeatures
)
set_native_pose()
(in
MakeBundle
)
show()
(in
DefineMovableLoops
)
schema()
(in
ConcurrencyTest
)
set_native_pose()
(in
MakeBundleHelix
)
show()
(in
GrowPeptides
)
schema()
(in
HelixBundleFeatures
)
set_native_pose()
(in
PerturbBundle
)
show()
(in
SeedFoldTree
)
schema()
(in
SandwichFeatures
)
set_native_pose()
(in
PerturbBundleHelix
)
show()
(in
SeedSetupMover
)
schema()
(in
StrandBundleFeatures
)
set_native_pose()
(in
BackboneTorsionPerturbation
)
show()
(in
SegmentHybridizer
)
schema_generator
(in
rosetta.basic.database
)
set_native_pose()
(in
BackboneTorsionSampler
)
show()
(in
SwapSegment
)
SchemaAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
set_native_pose()
(in
CartesianHybridize
)
show()
(in
CBScore
)
SchemaCAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
set_native_pose()
(in
CartesianSampler
)
show()
(in
ConstraintSetScore
)
SchemePlaceMotifsMover
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_native_pose()
(in
ChunkTrialMover
)
show()
(in
JointScore
)
SchemePlaceMotifsMoverAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_native_pose()
(in
DomainAssembly
)
show()
(in
LinkerScore
)
SchemePlaceMotifsMoverCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_native_pose()
(in
FoldTreeHybridize
)
show()
(in
RigidScore
)
SchemePlaceMotifsMoverCreator
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_native_pose()
(in
HybridizeProtocol
)
show()
(in
MotifHashRigidScore
)
SchemePlaceMotifsMoverCreatorAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_native_pose()
(in
InsertChunkMover
)
show()
(in
TrisBpyScore
)
SchemePlaceMotifsMoverCreatorCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_native_pose()
(in
MRMover
)
show()
(in
EvaluatedTrialMover
)
scmin
(in
rosetta.core.pack
)
set_native_pose()
(in
WeightedFragmentSmoothTrialMover
)
show()
(in
AddCavitiesMover
)
SCORE
(in
rosetta.basic
)
set_native_pose()
(in
WeightedFragmentTrialMover
)
show()
(in
AddChainMover
)
SCORE
(in
ProfTag
)
set_native_pose()
(in
IdealizeMover
)
show()
(in
AddConstraintsToCurrentConformationMover
)
SCORE
(in
rosetta.basic._basic_
)
set_native_pose()
(in
BalancedKicMover
)
show()
(in
AddJobPairData
)
score()
(in
FragData
)
set_native_pose()
(in
KicMover
)
show()
(in
AlignChainMover
)
score()
(in
Particle
)
set_native_pose()
(in
AddHydrogen
)
show()
(in
BBConRotMover
)
score()
(in
DunbrackConstraint
)
set_native_pose()
(in
AddHydrogens
)
show()
(in
BBG8T3AMover
)
score()
(in
RotamerConstraint
)
set_native_pose()
(in
CompoundTranslate
)
show()
(in
BBGaussianMover
)
score()
(in
DockingScoreFunction
)
set_native_pose()
(in
ComputeLigandRDF
)
show()
(in
BackboneMover
)
score()
(in
MinScoreScoreFunction
)
set_native_pose()
(in
FinalMinimizer
)
show()
(in
BoltzmannRotamerMover
)
score()
(in
ProQPotential
)
set_native_pose()
(in
GrowLigand
)
show()
(in
ChainSplitMover
)
score()
(in
ScoreFunction
)
set_native_pose()
(in
HighResDocker
)
show()
(in
ChangeAndResetFoldTreeMover
)
score()
(in
SecondaryStructurePotential
)
set_native_pose()
(in
InterfaceScoreCalculator
)
show()
(in
ClassicFragmentMover
)
score()
(in
AmbiguousConstraint
)
set_native_pose()
(in
LigandDesign
)
show()
(in
ClearConstraintsMover
)
score()
(in
AmbiguousNMRConstraint
)
set_native_pose()
(in
MinimizeBackbone
)
show()
(in
CombinePoseMover
)
score()
(in
AmbiguousNMRDistanceConstraint
)
set_native_pose()
(in
MinimizeLigand
)
show()
(in
ConsensusDesignMover
)
score()
(in
AngleConstraint
)
set_native_pose()
(in
RandomConformerMover
)
show()
(in
ConstrainToIdealMover
)
score()
(in
AtomPairConstraint
)
set_native_pose()
(in
RandomConformers
)
show()
(in
ConstraintSetMover
)
score()
(in
BackboneStubConstraint
)
set_native_pose()
(in
RigidSearchMover
)
show()
(in
ContingentAcceptMover
)
score()
(in
BackboneStubLinearConstraint
)
set_native_pose()
(in
Rotate
)
show()
(in
CopyDofMover
)
score()
(in
BigBinConstraint
)
set_native_pose()
(in
Rotates
)
show()
(in
CoupledMover
)
score()
(in
ConstantConstraint
)
set_native_pose()
(in
SlideTogether
)
show()
(in
CutChainMover
)
score()
(in
Constraint
)
set_native_pose()
(in
StartFrom
)
show()
(in
CyclizationMover
)
score()
(in
CoordinateConstraint
)
set_native_pose()
(in
TetherLigand
)
show()
(in
DME_FilterMover
)
score()
(in
DihedralConstraint
)
set_native_pose()
(in
Transform
)
show()
(in
DeleteChainsMover
)
score()
(in
DihedralPairConstraint
)
set_native_pose()
(in
Translate
)
show()
(in
DesignRepackMover
)
score()
(in
DistancePairConstraint
)
set_native_pose()
(in
UnconstrainedTorsionsMover
)
show()
(in
DisulfideInsertionMover
)
score()
(in
FabConstraint
)
set_native_pose()
(in
WriteLigandMolFile
)
show()
(in
DumpPdb
)
score()
(in
KofNConstraint
)
set_native_pose()
(in
LoopBuildMover
)
show()
(in
EnergyCutRotamerTrialsMinMover
)
score()
(in
LocalCoordinateConstraint
)
set_native_pose()
(in
LoopmodelWrapper
)
show()
(in
EnergyCutRotamerTrialsMover
)
score()
(in
MultiConstraint
)
set_native_pose()
(in
LoopBuilder
)
show()
(in
ExtendedPoseMover
)
score()
(in
NamedAngleConstraint
)
set_native_pose()
(in
LoopModeler
)
show()
(in
FavorSequenceProfile
)
score()
(in
NamedAtomPairConstraint
)
set_native_pose()
(in
LoopMover
)
show()
(in
FavorSymmetricSequence
)
score()
(in
NonResidueTypeConstraint
)
set_native_pose()
(in
LoopProtocol
)
show()
(in
FindConsensusSequence
)
score()
(in
ResidueTypeConstraint
)
set_native_pose()
(in
MinimizationRefiner
)
show()
(in
ForceDisulfidesMover
)
score()
(in
ResidueTypeLinkingConstraint
)
set_native_pose()
(in
RepackingRefiner
)
show()
(in
GenericMonteCarloMover
)
score()
(in
SequenceProfileConstraint
)
set_native_pose()
(in
RotamerTrialsRefiner
)
show()
(in
GreenPacker
)
score()
(in
SiteConstraint
)
set_native_pose()
(in
LegacyKicSampler
)
show()
(in
LoadPDBMover
)
score()
(in
SiteConstraintResidues
)
set_native_pose()
(in
AcceptanceCheck
)
show()
(in
LoadUnboundRotMover
)
score()
(in
MMBondAngleScore
)
set_native_pose()
(in
LoopFilter
)
show()
(in
LoggedFragmentMover
)
score()
(in
MMBondLengthScore
)
set_native_pose()
(in
LoopMoverGroup
)
show()
(in
MSDMover
)
score()
(in
MMLJEnergyTable
)
set_native_pose()
(in
PrepareForCentroid
)
show()
(in
MakePolyXMover
)
score()
(in
MMLJScore
)
set_native_pose()
(in
PrepareForFullatom
)
show()
(in
MembraneTopology
)
score()
(in
MMTorsionScore
)
set_native_pose()
(in
FastGapMover
)
show()
(in
MinMover
)
score()
(in
ResPairMotif
)
set_native_pose()
(in
LoopHashDiversifier
)
show()
(in
MinPackMover
)
score()
(in
PackingScore
)
set_native_pose()
(in
LoopHashLibrary
)
show()
(in
MissingDensityToJumpMover
)
score()
(in
SymmetricScoreFunction
)
set_native_pose()
(in
LoopHashMoverWrapper
)
show()
(in
ModifyVariantTypeMover
)
score()
(in
Cell
)
set_native_pose()
(in
LoopHashRelaxProtocol
)
show()
(in
MonteCarloRecover
)
score()
(in
ChemicalShiftScoringScheme
)
set_native_pose()
(in
Mover_LoopHashRefine
)
show()
(in
MonteCarloReset
)
score()
(in
CompassScoringScheme
)
set_native_pose()
(in
FoldTreeFromLoops
)
show()
(in
MonteCarloTest
)
score()
(in
CompositeScoringScheme
)
set_native_pose()
(in
CCDLoopClosureMover
)
show()
(in
MutateResidue
)
score()
(in
DPScoringScheme
)
set_native_pose()
(in
FASelectSlidingWindowLoopClosure
)
show()
(in
O2M_MutateMover
)
score()
(in
L1ScoringScheme
)
set_native_pose()
(in
SlidingWindowLoopClosure
)
show()
(in
PDBReloadMover
)
score()
(in
MatrixScoringScheme
)
set_native_pose()
(in
WidthFirstSlidingWindowLoopClosure
)
show()
(in
PSSM2BfactorMover
)
score()
(in
PairScoringScheme
)
set_native_pose()
(in
KinematicMover
)
show()
(in
PackRotamersMover
)
score()
(in
ProfSimScoringScheme
)
set_native_pose()
(in
KinematicWrapper
)
show()
(in
PackRotamersMoverLazy
)
score()
(in
ScoringScheme
)
set_native_pose()
(in
LoopCM
)
show()
(in
PeptideStapleMover
)
score()
(in
SequenceAlignment
)
set_native_pose()
(in
LoopRefineInnerCycle
)
show()
(in
PeriodicBoxMover
)
score()
(in
SimpleScoringScheme
)
set_native_pose()
(in
LoopRefineInnerCycleContainer
)
show()
(in
ProlineFixMover
)
score()
(in
RocPoint
)
set_native_pose()
(in
RepackTrial
)
show()
(in
RandomOmegaFlipMover
)
score()
(in
PeptideDeriverFilter
)
set_native_pose()
(in
ShearMinCCDTrial
)
show()
(in
RandomTorsionMover
)
score()
(in
AmbiguousMultiConstraint
)
set_native_pose()
(in
SmallMinCCDTrial
)
show()
(in
RepackSidechainsMover
)
score()
(in
BindingSiteConstraint
)
set_native_pose()
(in
MakeRotLibMover
)
show()
(in
RepeatPropagationMover
)
score()
(in
COMCoordinateConstraint
)
set_native_pose()
(in
MatcherMover
)
show()
(in
ReportEffectivePKA
)
score()
(in
SequenceCoupling1BDConstraint
)
set_native_pose()
(in
ExtractSubposeMover
)
show()
(in
RepulsiveOnlyMover
)
score()
(in
SequenceCouplingConstraint
)
set_native_pose()
(in
MatDesGreedyOptMutationMover
)
show()
(in
ResetBaselineMover
)
score()
(in
ExposedHydrophobicsFilter
)
set_native_pose()
(in
SchemePlaceMotifsMover
)
show()
(in
ResidueTypeConstraintMover
)
score()
(in
DockingHighResFilter
)
set_native_pose()
(in
SymDofMover
)
show()
(in
ReturnSidechainMover
)
score()
(in
DockingLowResFilter
)
set_native_pose()
(in
CartesianMD
)
show()
(in
RingConformationMover
)
score()
(in
CalculatorFilter
)
set_native_pose()
(in
MDBase
)
show()
(in
RotamerTrialsMinMover
)
score()
(in
CombinedFilter
)
set_native_pose()
(in
MedalExchangeMover
)
show()
(in
RotamerTrialsMover
)
score()
(in
CompoundFilter
)
set_native_pose()
(in
MedalMover
)
show()
(in
RotamerizeMover
)
score()
(in
ContingentFilter
)
set_native_pose()
(in
AddMPLigandMover
)
show()
(in
SaneMinMover
)
score()
(in
FalseFilter
)
set_native_pose()
(in
AddMembraneMover
)
show()
(in
ScoreMover
)
score()
(in
Filter
)
set_native_pose()
(in
FlipMover
)
show()
(in
SequenceProfileMover
)
score()
(in
IfThenFilter
)
set_native_pose()
(in
MembranePositionFromTopologyMover
)
show()
(in
SetReturningPackRotamersMover
)
score()
(in
MoveBeforeFilter
)
set_native_pose()
(in
RandomPositionRotationMover
)
show()
(in
SetTorsion
)
score()
(in
ReplicateFilter
)
set_native_pose()
(in
RandomPositionTranslationMover
)
show()
(in
ShakeStructureMover
)
score()
(in
StochasticFilter
)
set_native_pose()
(in
RotationMover
)
show()
(in
ShearMover
)
score()
(in
TimeFilter
)
set_native_pose()
(in
SetMembraneCenterMover
)
show()
(in
ShortBackrubMover
)
score()
(in
TrueFilter
)
set_native_pose()
(in
SetMembraneNormalMover
)
show()
(in
SmallMover
)
score()
(in
CoreDunbrackFilter
)
set_native_pose()
(in
SetMembranePositionMover
)
show()
(in
SuperimposeMover
)
score()
(in
FragQualFilter
)
set_native_pose()
(in
TransformIntoMembraneMover
)
show()
(in
SwitchChainOrderMover
)
score()
(in
HSSTripletFilter
)
set_native_pose()
(in
TranslationMover
)
show()
(in
SwitchResidueTypeSetMover
)
score()
(in
HelixKinkFilter
)
set_native_pose()
(in
TranslationRotationMover
)
show()
(in
TailsScoreMover
)
score()
(in
HelixPairingFilter
)
set_native_pose()
(in
SymmetricAddMembraneMover
)
show()
(in
TaskAwareMinMover
)
score()
(in
InterlockingAromaFilter
)
set_native_pose()
(in
VisualizeEmbeddingMover
)
show()
(in
TorsionDOFMover
)
score()
(in
NcontactsFilter
)
set_native_pose()
(in
VisualizeMembraneMover
)
show()
(in
TorsionSetMover
)
score()
(in
ParallelBetaPairingPreferenceFilter
)
set_native_pose()
(in
ZincHeterodimerMover
)
show()
(in
Tumble
)
score()
(in
SecondaryStructureCountFilter
)
set_native_pose()
(in
MotifGraftMover
)
show()
(in
UniformRotationMover
)
score()
(in
SecondaryStructureFilter
)
set_native_pose()
(in
MotifDnaPacker
)
show()
(in
UniformTranslationMover
)
score()
(in
SecondaryStructureHasResidueFilter
)
set_native_pose()
(in
CompositionMover
)
show()
(in
VirtualRootMover
)
score()
(in
SheetTopologyFilter
)
set_native_pose()
(in
CycleMover
)
show()
(in
ddG
)
score()
(in
HSPairPotential
)
set_native_pose()
(in
CyclicMover
)
show()
(in
AsymFoldandDockMoveRbJumpMover
)
score()
(in
NatbiasHelicesSheetPotential
)
set_native_pose()
(in
DsspMover
)
show()
(in
AsymFoldandDockRbTrialMover
)
score()
(in
NatbiasHelixPairPotential
)
set_native_pose()
(in
FilterMover
)
show()
(in
InitializeByBins
)
score()
(in
NatbiasStrandPairPotential
)
set_native_pose()
(in
FilterReporterMover
)
show()
(in
PerturbByBins
)
score()
(in
SSPairPotential
)
set_native_pose()
(in
IfMover
)
show()
(in
ChiralMover
)
score()
(in
DimerPairing
)
set_native_pose()
(in
IteratedConvergenceMover
)
show()
(in
HbsPatcher
)
score()
(in
OtherContextScoreFunction
)
set_native_pose()
(in
JumpOutMover
)
show()
(in
OopDPuckMinusMover
)
score()
(in
ABEGO_SS_Score
)
set_native_pose()
(in
MCShowMover
)
show()
(in
OopDPuckPlusMover
)
score()
(in
AmbigCSScore
)
set_native_pose()
(in
MonteCarloUtil
)
show()
(in
OopMover
)
score()
(in
AtomBasedConstraintsScore
)
set_native_pose()
(in
MoveMapMover
)
show()
(in
OopPatcher
)
score()
(in
AtomPairConstraintsScore
)
set_native_pose()
(in
Mover
)
show()
(in
OopPuckMinusMover
)
score()
(in
BFactor
)
set_native_pose()
(in
MoverApplyingMover
)
show()
(in
OopPuckPlusMover
)
score()
(in
CSScore
)
set_native_pose()
(in
MoverContainer
)
show()
(in
OopRandomPuckMover
)
score()
(in
CachingScoringMethod
)
set_native_pose()
(in
MoverForPoseList
)
show()
(in
OopRandomSmallMover
)
score()
(in
ConstScore
)
set_native_pose()
(in
NullMover
)
show()
(in
RationalMonteCarlo
)
score()
(in
DihedralConstraintsScore
)
set_native_pose()
(in
PDBDumpMover
)
show()
(in
JumpRotamerSidechainMover
)
score()
(in
DisulfideDistance
)
set_native_pose()
(in
ProfilerMover
)
show()
(in
PerturbChiSidechainMover
)
score()
(in
DisulfideIdentity
)
set_native_pose()
(in
PyMolMover
)
show()
(in
PerturbRotamerSidechainMover
)
score()
(in
FragmentAllAtomCrmsd
)
set_native_pose()
(in
RampingMover
)
show()
(in
SetChiMover
)
score()
(in
FragmentChunkCrms
)
set_native_pose()
(in
RandomMover
)
show()
(in
SidechainMCMover
)
score()
(in
FragmentCrmsd
)
set_native_pose()
(in
RepeatMover
)
show()
(in
SidechainMover
)
score()
(in
FragmentCrmsdResDepth
)
set_native_pose()
(in
SequenceMover
)
show()
(in
SidechainMoverBase
)
score()
(in
FragmentDME
)
set_native_pose()
(in
StructureRestrictor
)
show()
(in
DetectSymmetry
)
score()
(in
FragmentScoringMethod
)
set_native_pose()
(in
TrialMover
)
show()
(in
ExtractAsymmetricPoseMover
)
score()
(in
GunnCostScore
)
set_native_pose()
(in
VectorPoseMover
)
show()
(in
ExtractAsymmetricUnitMover
)
score()
(in
HydrophobicityProfileSimilarity
)
set_native_pose()
(in
WhileMover
)
show()
(in
FaSymDockingSlideTogether
)
score()
(in
HydrophobicitySimilarity
)
set_native_pose()
(in
StructAvrgMover
)
show()
(in
SetupForSymmetryMover
)
score()
(in
InterbondAngleScore
)
set_native_pose()
(in
NcbbDockDesignProtocol
)
show()
(in
SetupNCSMover
)
score()
(in
JCoupling
)
set_native_pose()
(in
OopCreatorMover
)
show()
(in
SymDockingInitialPerturbation
)
score()
(in
LAMBEGO_Similarity
)
set_native_pose()
(in
OopDockDesignProtocol
)
show()
(in
SymDockingSlideIntoContact
)
score()
(in
MidPhiOut
)
set_native_pose()
(in
CartesianNormalModeMover
)
show()
(in
SymEnergyCutRotamerTrialsMover
)
score()
(in
MidPsiOut
)
set_native_pose()
(in
NormalModeMinimizer
)
show()
(in
SymMinMover
)
score()
(in
PCS_FragDistance
)
set_native_pose()
(in
NormalModeRelaxMover
)
show()
(in
SymPackRotamersMover
)
score()
(in
PartialSecondarySimilarity
)
set_native_pose()
(in
TorsionNormalModeMover
)
show()
(in
SymRotamerTrialsMover
)
score()
(in
Phi
)
set_native_pose()
(in
SetupPoissonBoltzmannPotential
)
show()
(in
SymShakeStructureMover
)
score()
(in
PhiPsiRmsd
)
set_native_pose()
(in
AddChainBreak
)
show()
(in
SymmetricRMSMover
)
score()
(in
PhiPsiSquareWell
)
set_native_pose()
(in
AddSidechainConstraintsToHotspots
)
show()
(in
TaskAwareSymMinMover
)
score()
(in
ProfileScore
)
set_native_pose()
(in
BackrubDDMover
)
show()
(in
StepWiseProteinMinimizer
)
score()
(in
ProfileScoreBlosum62
)
set_native_pose()
(in
BestHotspotCstMover
)
show()
(in
StepWiseProteinPoseSetup
)
score()
(in
ProfileScoreDistWeight
)
set_native_pose()
(in
BuildAlaPose
)
show()
(in
StepWiseRNA_PoseSetup
)
score()
(in
ProfileScoreL1
)
set_native_pose()
(in
DesignMinimizeHbonds
)
show()
(in
StepWiseConnectionSampler
)
score()
(in
ProfileScoreStructL1
)
set_native_pose()
(in
DisulfideMover
)
show()
(in
StepWiseMinimizer
)
score()
(in
ProfileScoreSubMatrix
)
set_native_pose()
(in
DockAndRetrieveSidechains
)
show()
(in
StepWiseModeler
)
score()
(in
ProlinePhiScore
)
set_native_pose()
(in
DockWithHotspotMover
)
show()
(in
StepWiseModelerOptions
)
score()
(in
Psi
)
set_native_pose()
(in
FavorNativeResiduePreCycle
)
show()
(in
StepWiseProteinModelerOptions
)
score()
(in
RDCScore
)
set_native_pose()
(in
FavorNonNativeResiduePreCycle
)
show()
(in
StepWiseRNA_ModelerOptions
)
score()
(in
RamaScore
)
set_native_pose()
(in
HotspotDisjointedFoldTreeMover
)
show()
(in
SideChainCopier
)
score()
(in
ScoreEValuator
)
set_native_pose()
(in
HotspotHasherMover
)
show()
(in
StepWisePacker
)
score()
(in
SecondaryIdentity
)
set_native_pose()
(in
InterfaceRecapitulationMover
)
show()
(in
PolarHydrogenPacker
)
score()
(in
SecondarySimilarity
)
set_native_pose()
(in
LoopFinder
)
show()
(in
PrecomputedLibraryMover
)
score()
(in
SequenceIdentity
)
set_native_pose()
(in
LoopLengthChange
)
show()
(in
StepWiseProteinBackboneSampler
)
score()
(in
SolventAccessibility
)
set_native_pose()
(in
LoopMoverFromCommandLine
)
show()
(in
StepWiseProteinCCD_Closer
)
score()
(in
TalosSSSimilarity
)
set_native_pose()
(in
LoopOver
)
show()
(in
StepWiseProteinCCD_MultiPoseCloser
)
score()
(in
TorsionBinSimilarity
)
set_native_pose()
(in
LoopRemodel
)
show()
(in
StepWiseProteinKIC_LoopBridger
)
score()
(in
FragmentLookupFilter
)
set_native_pose()
(in
MapHotspot
)
show()
(in
BulgeApplyMover
)
score()
(in
AtomCountFilter
)
set_native_pose()
(in
PatchdockTransform
)
show()
(in
BulgeUnApplyMover
)
score()
(in
ChainExistsFilter
)
set_native_pose()
(in
PeptideStapleDesignMover
)
show()
(in
RNA_ChainClosureChecker
)
score()
(in
CompleteConnectionsFilter
)
set_native_pose()
(in
PlaceOnLoop
)
show()
(in
RNA_HelixAssembler
)
score()
(in
HBondAcceptorFilter
)
set_native_pose()
(in
PlaceSimultaneouslyMover
)
show()
(in
O2PrimePacker
)
score()
(in
HBondDonorFilter
)
set_native_pose()
(in
PlaceStubMover
)
show()
(in
MultiPhosphateSampler
)
score()
(in
HeavyAtomFilter
)
set_native_pose()
(in
PlacementAuctionMover
)
show()
(in
PhosphateMover
)
score()
(in
MolarMassFilter
)
set_native_pose()
(in
PlacementMinimizationMover
)
show()
(in
SugarInstantiateMover
)
score()
(in
MolecularMassFilter
)
set_native_pose()
(in
PrepackMover
)
show()
(in
SugarVirtualizeMover
)
score()
(in
DownstreamRMSEvaluator
)
set_native_pose()
(in
ProteinInterfaceMultiStateDesignMover
)
show()
(in
VirtualSugarJustInTimeInstantiator
)
score()
(in
MatchEvaluator
)
set_native_pose()
(in
RandomMutation
)
show()
(in
VirtualSugarSampler
)
score()
(in
ClashCheckFilter
)
set_native_pose()
(in
RepackMinimize
)
show()
(in
VirtualSugarSamplerFromStringList
)
score()
(in
GetRBDOFValues
)
set_native_pose()
(in
SaveAndRetrieveSidechains
)
show()
(in
StepWiseMonteCarlo
)
score()
(in
InterfacePackingFilter
)
set_native_pose()
(in
SetAtomTree
)
show()
(in
AddMover
)
score()
(in
OligomericAverageDegreeFilter
)
set_native_pose()
(in
SetTemperatureFactor
)
show()
(in
AddOrDeleteMover
)
score()
(in
SymUnsatHbondFilter
)
set_native_pose()
(in
SetupHotspotConstraintsLoopsMover
)
show()
(in
DeleteMover
)
score()
(in
AlterSpecDisruptionDriver
)
set_native_pose()
(in
SetupHotspotConstraintsMover
)
show()
(in
FromScratchMover
)
score()
(in
PointMutScanDriver
)
set_native_pose()
(in
ShoveResidueMover
)
show()
(in
ResampleMover
)
score()
(in
PocketConstraint
)
set_native_pose()
(in
SpinMover
)
show()
(in
StepWiseMasterMover
)
score()
(in
AtomicContactCountFilter
)
set_native_pose()
(in
SubroutineMover
)
show()
(in
StepWiseMonteCarloOptions
)
score()
(in
AverageDegreeFilter
)
set_native_pose()
(in
TaskAwareCsts
)
show()
(in
RNA_AddDeleteMonteCarlo
)
score()
(in
BindingStrainFilter
)
set_native_pose()
(in
TopologyBrokerMover
)
show()
(in
RNA_O2PrimeMover
)
score()
(in
BoltzmannFilter
)
set_native_pose()
(in
TryRotamers
)
show()
(in
RNA_TorsionMover
)
score()
(in
ClashWithTargetFilter
)
set_native_pose()
(in
VLB
)
show()
(in
JumpStepWiseSampler
)
score()
(in
DesignableResiduesFilter
)
set_native_pose()
(in
AutoRBMover
)
show()
(in
MC_Comb
)
score()
(in
DisulfideFilter
)
set_native_pose()
(in
FragInsertAndAlignMover
)
show()
(in
MC_OneTorsion
)
score()
(in
FNatFilter
)
set_native_pose()
(in
GaussianRBSegmentMover
)
show()
(in
NoOpStepWiseSampler
)
score()
(in
FilterScanFilter
)
set_native_pose()
(in
HelicalGaussianMover
)
show()
(in
StepWiseSamplerAny
)
score()
(in
HbondsToAtomFilter
)
set_native_pose()
(in
IdealizeHelicesMover
)
show()
(in
StepWiseSamplerBase
)
score()
(in
HbondsToResidueFilter
)
set_native_pose()
(in
MakeStarTopologyMover
)
show()
(in
StepWiseSamplerComb
)
score()
(in
IRmsdFilter
)
set_native_pose()
(in
OptimizeThreadingMover
)
show()
(in
StepWiseSamplerOneTorsion
)
score()
(in
InterfaceHolesFilter
)
set_native_pose()
(in
RBSegmentMover
)
show()
(in
StepWiseSamplerOneValue
)
score()
(in
LRmsdFilter
)
set_native_pose()
(in
RBSegmentRelax
)
show()
(in
StepWiseSamplerOneValueComb
)
score()
(in
RelativeSegmentFilter
)
set_native_pose()
(in
SequenceShiftMover
)
show()
(in
StepWiseSamplerSized
)
score()
(in
RmsdFilter
)
set_native_pose()
(in
StrandTwistingMover
)
show()
(in
StepWiseSamplerSizedAny
)
score()
(in
RmsdSimpleFilter
)
set_native_pose()
(in
AtomCoordinateCstMover
)
show()
(in
StepWiseSamplerSizedComb
)
score()
(in
SSamountFilter
)
set_native_pose()
(in
CentroidRelax
)
show()
(in
CopyDofStepWiseSampler
)
score()
(in
SequenceRecoveryFilter
)
set_native_pose()
(in
ClassicRelax
)
show()
(in
ResidueAlternativeStepWiseSampler
)
score()
(in
SpecificResiduesNearInterfaceFilter
)
set_native_pose()
(in
FastRelax
)
show()
(in
ResidueAlternativeStepWiseSamplerComb
)
score()
(in
StubScoreFilter
)
set_native_pose()
(in
LocalRelax
)
show()
(in
ResidueListStepWiseSampler
)
score()
(in
StubScoreLoopsFilter
)
set_native_pose()
(in
MiniRelax
)
show()
(in
InputStreamStepWiseSampler
)
score()
(in
Torsion
)
set_native_pose()
(in
RelaxProtocolBase
)
show()
(in
ProteinBetaAntiParallelStepWiseSampler
)
score()
(in
SequenceShiftMover
)
set_native_pose()
(in
WorkUnit_BatchRelax
)
show()
(in
ProteinFragmentStepWiseSampler
)
score()
(in
CBScore
)
set_native_pose()
(in
MPFastRelaxMover
)
show()
(in
ProteinMainChainStepWiseSampler
)
score()
(in
ConstraintSetScore
)
set_native_pose()
(in
MembraneCenterPerturbationMover
)
show()
(in
RigidBodyStepWiseSampler
)
score()
(in
JointScore
)
set_native_pose()
(in
MembraneNormalPerturbationMover
)
show()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
score()
(in
LinkerScore
)
set_native_pose()
(in
MovePoseToMembraneCenterMover
)
show()
(in
RigidBodyStepWiseSamplerWithResidueList
)
score()
(in
RigidScore
)
set_native_pose()
(in
RigidBodyDeterministicSpinMover
)
show()
(in
RNA_ChiStepWiseSampler
)
score()
(in
XfoxmScore
)
set_native_pose()
(in
RigidBodyDofPerturbMover
)
show()
(in
RNA_KIC_Sampler
)
score()
(in
MotifHashRigidScore
)
set_native_pose()
(in
RigidBodyDofRandomTransMover
)
show()
(in
RNA_KinematicCloser
)
score()
(in
TrisBpyScore
)
set_native_pose()
(in
RigidBodyDofRandomizeMover
)
show()
(in
RNA_MC_MultiSuite
)
score()
(in
AbinitioBaseFilter
)
set_native_pose()
(in
RigidBodyDofSeqPerturbMover
)
show()
(in
RNA_MC_Sugar
)
score()
(in
AlaScan
)
set_native_pose()
(in
RigidBodyDofSeqRandomizeMover
)
show()
(in
RNA_MC_Suite
)
score()
(in
AngleToVector
)
set_native_pose()
(in
RigidBodyDofSeqTransMover
)
show()
(in
RNA_NucleosideStepWiseSampler
)
score()
(in
AtomicContactFilter
)
set_native_pose()
(in
RigidBodyDofTransMover
)
show()
(in
RNA_SugarStepWiseSampler
)
score()
(in
AtomicDistanceFilter
)
set_native_pose()
(in
RigidBodyMotionMover
)
show()
(in
RNA_SuiteStepWiseSampler
)
score()
(in
AveragePathLengthFilter
)
set_native_pose()
(in
RigidBodyMover
)
show()
(in
StepWiseCSA_JobDistributor
)
score()
(in
BuriedUnsatHbondFilter
)
set_native_pose()
(in
RigidBodyPerturbMover
)
show()
(in
StepWiseJobDistributor
)
score()
(in
COFilter
)
set_native_pose()
(in
RigidBodyPerturbNoCenterMover
)
show()
(in
StepWiseMonteCarloJobDistributor
)
score()
(in
ConservedPosMutationFilter
)
set_native_pose()
(in
RigidBodyPerturbRandomJumpMover
)
show()
(in
CentroidRelaxMover
)
score()
(in
ConstraintScoreCutoffFilter
)
set_native_pose()
(in
RigidBodyRandomizeMover
)
show()
(in
FullatomRelaxMover
)
score()
(in
DdGScan
)
set_native_pose()
(in
RigidBodySpinMover
)
show()
(in
SurfaceDockingProtocol
)
score()
(in
DdgFilter
)
set_native_pose()
(in
RigidBodyTransMover
)
show()
(in
SurfaceOrientMover
)
score()
(in
DeltaFilter
)
set_native_pose()
(in
RollMover
)
show()
(in
SurfaceVectorOptions
)
score()
(in
DisulfideEntropyFilter
)
set_native_pose()
(in
RotateJumpAxisMover
)
show()
(in
SymDockBaseProtocol
)
score()
(in
DomainInterfaceFilter
)
set_native_pose()
(in
UniformRigidBodyCM
)
show()
(in
SymDockProtocol
)
score()
(in
EnergyPerResidueFilter
)
set_native_pose()
(in
UniformRigidBodyMover
)
show()
(in
SymDockingHiRes
)
score()
(in
ExpiryFilter
)
set_native_pose()
(in
UniformSphereTransMover
)
show()
(in
SymDockingLowRes
)
score()
(in
FileExistFilter
)
set_native_pose()
(in
WholeBodyRotationMover
)
show()
(in
SymFoldandDockMoveRbJumpMover
)
score()
(in
FileRemoveFilter
)
set_native_pose()
(in
WholeBodyTranslationMover
)
show()
(in
SymFoldandDockRbTrialMover
)
score()
(in
GeometryFilter
)
set_native_pose()
(in
AdditionalOutputWrapper
)
show()
(in
SymFoldandDockSlideTrialMover
)
score()
(in
HolesFilter
)
set_native_pose()
(in
MultipleOutputWrapper
)
show()
(in
SymInterfaceSidechainMinMover
)
score()
(in
InterRepeatContactFilter
)
set_native_pose()
(in
MultiplePoseMover
)
show()
(in
SymSidechainMinMover
)
score()
(in
InterfaceBindingEnergyDensityFilter
)
set_native_pose()
(in
ParsedProtocol
)
show()
(in
MPSymDockMover
)
score()
(in
InterfaceSasaFilter
)
set_native_pose()
(in
SavePoseMover
)
show()
(in
AllowInsert
)
score()
(in
IntraRepeatContactFilter
)
set_native_pose()
(in
RotamerRecoveryMover
)
show()
(in
ClusterBase
)
score()
(in
LeastNativeLike9merFilter
)
set_native_pose()
(in
CAcstGenerator
)
show()
(in
AlignPoseToInvrotTreeMover
)
score()
(in
MotifScoreFilter
)
set_native_pose()
(in
CloseFold
)
show()
(in
DecomposeAndReweightEnergiesCalculator
)
score()
(in
MultipleSigmoids
)
set_native_pose()
(in
CoordinateCst
)
show()
(in
StoreCombinedStoredTasksMover
)
score()
(in
MutationsFilter
)
set_native_pose()
(in
DefineMovableLoops
)
show()
(in
StoreCompoundTaskMover
)
score()
(in
NMerPSSMEnergyFilter
)
set_native_pose()
(in
GrowPeptides
)
show()
(in
StoreTaskMover
)
score()
(in
NMerSVMEnergyFilter
)
set_native_pose()
(in
SeedFoldTree
)
show()
(in
BBClaim
)
score()
(in
NeighborTypeFilter
)
set_native_pose()
(in
SeedSetupMover
)
show()
(in
CutClaim
)
score()
(in
NetChargeFilter
)
set_native_pose()
(in
SegmentHybridizer
)
show()
(in
DofClaim
)
score()
(in
NonSequentialNeighborsFilter
)
set_native_pose()
(in
SwapSegment
)
show()
(in
JumpClaim
)
score()
(in
Operator
)
set_native_pose()
(in
EvaluatedTrialMover
)
show()
(in
LegacyRootClaim
)
score()
(in
PDDFScoreFilter
)
set_native_pose()
(in
AddCavitiesMover
)
show()
(in
SequenceClaim
)
score()
(in
PackStatFilter
)
set_native_pose()
(in
AddChainMover
)
show()
(in
SymmetryClaim
)
score()
(in
PackerNeighborGraphFilter
)
set_native_pose()
(in
AddConstraintsToCurrentConformationMover
)
show()
(in
UnfoldedStateEnergyCalculatorMover
)
score()
(in
PoseComment
)
set_native_pose()
(in
AddJobPairData
)
show()
(in
Show
)
score()
(in
PoseInfoFilter
)
set_native_pose()
(in
AlignChainMover
)
show()
(in
EXCN_Base
)
score()
(in
RGFilter
)
set_native_pose()
(in
BBConRotMover
)
show()
(in
EXCN_Msg_Exception
)
score()
(in
RangeFilter
)
set_native_pose()
(in
BBG8T3AMover
)
show_all_atom_names()
(in
ResidueType
)
score()
(in
RelativePoseFilter
)
set_native_pose()
(in
BBGaussianMover
)
show_all_residue_tasks()
(in
PackerTask
)
score()
(in
RepeatParameterFilter
)
set_native_pose()
(in
BackboneMover
)
show_all_residue_tasks()
(in
PackerTask_
)
score()
(in
ReportFilter
)
set_native_pose()
(in
BoltzmannRotamerMover
)
show_atom_tree()
(in
rosetta.core.conformation._core_conformation_
)
score()
(in
ResidueBurialFilter
)
set_native_pose()
(in
ChainSplitMover
)
show_availability()
(in
ABEGO_SS_Pool
)
score()
(in
ResidueCountFilter
)
set_native_pose()
(in
ChangeAndResetFoldTreeMover
)
show_availability()
(in
QuotaPool
)
score()
(in
ResidueDistanceFilter
)
set_native_pose()
(in
ClearConstraintsMover
)
show_availability()
(in
SecondaryStructurePool
)
score()
(in
ResidueIEFilter
)
set_native_pose()
(in
CombinePoseMover
)
show_available_silent_struct_types()
(in
SilentStructFactory
)
score()
(in
ResidueSetChainEnergyFilter
)
set_native_pose()
(in
ConsensusDesignMover
)
show_base_pair_params()
(in
rosetta.core.scoring.dna._core_scoring_dna_
)
score()
(in
ResiduesInInterfaceFilter
)
set_native_pose()
(in
ConstrainToIdealMover
)
show_classic()
(in
AnnotatedFragData
)
score()
(in
RotamerBoltzmannWeight
)
set_native_pose()
(in
ConstraintSetMover
)
show_classic()
(in
FragData
)
score()
(in
SAXSScoreFilter
)
set_native_pose()
(in
ContingentAcceptMover
)
show_classic()
(in
Frame
)
score()
(in
SSMotifFinder
)
set_native_pose()
(in
CopyDofMover
)
show_classic()
(in
JumpingFrame
)
score()
(in
SavePoseConstraintToFileFilter
)
set_native_pose()
(in
CoupledMover
)
show_classic()
(in
NonContinuousFrame
)
score()
(in
SaveResfileToDiskFilter
)
set_native_pose()
(in
CutChainMover
)
show_cluster_assignments()
(in
KClusterData
)
score()
(in
ScoreCutoffFilter
)
set_native_pose()
(in
CyclizationMover
)
show_contents()
(in
Inline_File_Provider
)
score()
(in
ScoreTypeFilter
)
set_native_pose()
(in
DME_FilterMover
)
show_counters()
(in
MonteCarlo
)
score()
(in
ShapeComplementarityFilter
)
set_native_pose()
(in
DeleteChainsMover
)
show_counters()
(in
GenericMonteCarloMover
)
score()
(in
SheetFilter
)
set_native_pose()
(in
DesignRepackMover
)
show_counters()
(in
SidechainMCMover
)
score()
(in
SidechainRmsdFilter
)
set_native_pose()
(in
DisulfideInsertionMover
)
show_cst_definitions()
(in
EnzConstraintIO
)
score()
(in
Sigmoid
)
set_native_pose()
(in
DumpPdb
)
show_def()
(in
DunbrackConstraint
)
score()
(in
StemFinder
)
set_native_pose()
(in
EnergyCutRotamerTrialsMinMover
)
show_def()
(in
RotamerConstraint
)
score()
(in
SymmetricMotifFilter
)
set_native_pose()
(in
EnergyCutRotamerTrialsMover
)
show_def()
(in
AmbiguousConstraint
)
score()
(in
TaskAwareSASAFilter
)
set_native_pose()
(in
ExtendedPoseMover
)
show_def()
(in
AmbiguousNMRConstraint
)
score()
(in
TaskAwareScoreTypeFilter
)
set_native_pose()
(in
FavorSequenceProfile
)
show_def()
(in
AmbiguousNMRDistanceConstraint
)
score()
(in
TerminusDistanceFilter
)
set_native_pose()
(in
FavorSymmetricSequence
)
show_def()
(in
AngleConstraint
)
score()
(in
TotalSasaFilter
)
set_native_pose()
(in
FindConsensusSequence
)
show_def()
(in
AtomPairConstraint
)
score()
(in
FragmentCost
)
set_native_pose()
(in
ForceDisulfidesMover
)
show_def()
(in
BackboneStubConstraint
)
score()
(in
GunnCost
)
set_native_pose()
(in
GenericMonteCarloMover
)
show_def()
(in
BackboneStubLinearConstraint
)
score_all_particles()
(in
DarcParticleSwarmMinimizer
)
set_native_pose()
(in
GreenPacker
)
show_def()
(in
BigBinConstraint
)
score_and_output()
(in
DockingPrepackProtocol
)
set_native_pose()
(in
LoadPDBMover
)
show_def()
(in
ConstantConstraint
)
SCORE_BEGIN_NOTIFY
(in
rosetta.basic
)
set_native_pose()
(in
LoadUnboundRotMover
)
show_def()
(in
Constraint
)
SCORE_BEGIN_NOTIFY
(in
ProfTag
)
set_native_pose()
(in
MSDMover
)
show_def()
(in
CoordinateConstraint
)
SCORE_BEGIN_NOTIFY
(in
rosetta.basic._basic_
)
set_native_pose()
(in
MakePolyXMover
)
show_def()
(in
DihedralConstraint
)
score_by_scoretype()
(in
ScoreFunction
)
set_native_pose()
(in
MembraneTopology
)
show_def()
(in
DihedralPairConstraint
)
score_d2()
(in
SymmetricMotifFilter
)
set_native_pose()
(in
MinMover
)
show_def()
(in
DistancePairConstraint
)
score_disulfide()
(in
CentroidDisulfidePotential
)
set_native_pose()
(in
MinPackMover
)
show_def()
(in
FabConstraint
)
score_disulfide()
(in
DisulfideMatchingPotential
)
set_native_pose()
(in
MissingDensityToJumpMover
)
show_def()
(in
KofNConstraint
)
SCORE_DOT
(in
rosetta.basic
)
set_native_pose()
(in
ModifyVariantTypeMover
)
show_def()
(in
LocalCoordinateConstraint
)
SCORE_DOT
(in
ProfTag
)
set_native_pose()
(in
MonteCarloRecover
)
show_def()
(in
MultiConstraint
)
SCORE_DOT
(in
rosetta.basic._basic_
)
set_native_pose()
(in
MonteCarloReset
)
show_def()
(in
NamedAngleConstraint
)
SCORE_END_NOTIFY
(in
rosetta.basic
)
set_native_pose()
(in
MonteCarloTest
)
show_def()
(in
NamedAtomPairConstraint
)
SCORE_END_NOTIFY
(in
ProfTag
)
set_native_pose()
(in
MutateResidue
)
show_def()
(in
NonResidueTypeConstraint
)
SCORE_END_NOTIFY
(in
rosetta.basic._basic_
)
set_native_pose()
(in
O2M_MutateMover
)
show_def()
(in
ResidueTypeConstraint
)
score_extra()
(in
TrisBpyScore
)
set_native_pose()
(in
PDBReloadMover
)
show_def()
(in
ResidueTypeLinkingConstraint
)
score_file()
(in
Batch
)
set_native_pose()
(in
PSSM2BfactorMover
)
show_def()
(in
SequenceProfileConstraint
)
score_filter()
(in
SilentFileData
)
set_native_pose()
(in
PackRotamersMover
)
show_def()
(in
SiteConstraint
)
SCORE_FINALIZE
(in
rosetta.basic
)
set_native_pose()
(in
PackRotamersMoverLazy
)
show_def()
(in
SiteConstraintResidues
)
SCORE_FINALIZE
(in
ProfTag
)
set_native_pose()
(in
PeptideStapleMover
)
show_def()
(in
AmbiguousMultiConstraint
)
SCORE_FINALIZE
(in
rosetta.basic._basic_
)
set_native_pose()
(in
PeriodicBoxMover
)
show_def()
(in
BindingSiteConstraint
)
score_fragment()
(in
FragmentScoreManager
)
set_native_pose()
(in
ProlineFixMover
)
show_def()
(in
COMCoordinateConstraint
)
score_fragment()
(in
PValuedFragmentScoreManager
)
set_native_pose()
(in
RandomOmegaFlipMover
)
show_def()
(in
SequenceCoupling1BDConstraint
)
score_fragment_from_cache()
(in
FragmentScoreManager
)
set_native_pose()
(in
RandomTorsionMover
)
show_def()
(in
SequenceCouplingConstraint
)
score_fragment_from_cache()
(in
PValuedFragmentScoreManager
)
set_native_pose()
(in
RepackSidechainsMover
)
show_def()
(in
PocketConstraint
)
score_fun8()
(in
TMalign
)
set_native_pose()
(in
RepeatPropagationMover
)
show_def_nopose()
(in
NamedAngleConstraint
)
score_function()
(in
EnergyEval
)
set_native_pose()
(in
ReportEffectivePKA
)
show_def_nopose()
(in
NamedAtomPairConstraint
)
score_function()
(in
OnTheFlyInteractionGraph
)
set_native_pose()
(in
RepulsiveOnlyMover
)
show_definition()
(in
BoundFunc
)
score_function()
(in
SymmOnTheFlyInteractionGraph
)
set_native_pose()
(in
ResetBaselineMover
)
show_definition()
(in
ConstraintSet
)
score_function()
(in
BiasedMonteCarlo
)
set_native_pose()
(in
ResidueTypeConstraintMover
)
show_definition()
(in
Constraints
)
score_function()
(in
ddGMover
)
set_native_pose()
(in
ReturnSidechainMover
)
show_definition()
(in
OffsetPeriodicBoundFunc
)
score_function()
(in
DnaInterfaceMinMover
)
set_native_pose()
(in
RingConformationMover
)
show_definition()
(in
PeriodicBoundFunc
)
score_function()
(in
PDBOutput
)
set_native_pose()
(in
RotamerTrialsMinMover
)
show_definition()
(in
DistanceFunc
)
score_function()
(in
RNA_Minimizer
)
set_native_pose()
(in
RotamerTrialsMover
)
show_definition()
(in
CBSG_Dihedral_Func
)
score_function()
(in
DualMonteCarlo
)
set_native_pose()
(in
RotamerizeMover
)
show_definition()
(in
CB_Angle_Func
)
score_function()
(in
MonteCarlo
)
set_native_pose()
(in
SaneMinMover
)
show_definition()
(in
CaCbCbCa_Dihedral_Func
)
score_function()
(in
ReplicaExchangeMC
)
set_native_pose()
(in
ScoreMover
)
show_definition()
(in
CaCbCb_Angle_Func
)
score_function()
(in
SimulatedTempering
)
set_native_pose()
(in
SequenceProfileMover
)
show_definition()
(in
Cb_Distance_Func
)
score_function()
(in
PackDaemon
)
set_native_pose()
(in
SetReturningPackRotamersMover
)
show_definition()
(in
Cen_Distance_Func
)
score_function()
(in
RotamerRecoveryMover
)
set_native_pose()
(in
SetTorsion
)
show_definition()
(in
NCaCaC_Dihedral_Func
)
score_function()
(in
FindConsensusSequence
)
set_native_pose()
(in
ShakeStructureMover
)
show_definition()
(in
SGSG_Dihedral_Func
)
score_function()
(in
GenericMonteCarloMover
)
set_native_pose()
(in
ShearMover
)
show_definition()
(in
SG_Dist_Func
)
score_function()
(in
MinMover
)
set_native_pose()
(in
ShortBackrubMover
)
show_definition()
(in
AmberPeriodicFunc
)
score_function()
(in
MinPackMover
)
set_native_pose()
(in
SmallMover
)
show_definition()
(in
CharmmPeriodicFunc
)
score_function()
(in
PackRotamersMover
)
set_native_pose()
(in
SuperimposeMover
)
show_definition()
(in
CircularGeneral1D_Func
)
score_function()
(in
RotamerTrialsMinMover
)
set_native_pose()
(in
SwitchChainOrderMover
)
show_definition()
(in
CircularHarmonicFunc
)
score_function()
(in
RotamerTrialsMover
)
set_native_pose()
(in
SwitchResidueTypeSetMover
)
show_definition()
(in
CircularPowerFunc
)
score_function()
(in
SaneMinMover
)
set_native_pose()
(in
TailsScoreMover
)
show_definition()
(in
CircularSigmoidalFunc
)
score_function()
(in
ScoreMover
)
set_native_pose()
(in
TaskAwareMinMover
)
show_definition()
(in
CircularSplineFunc
)
score_function()
(in
RationalMonteCarlo
)
set_native_pose()
(in
TorsionDOFMover
)
show_definition()
(in
ConstantFunc
)
score_function()
(in
SymMinMover
)
set_native_pose()
(in
TorsionSetMover
)
show_definition()
(in
CountViolFunc
)
score_fxn()
(in
InterfaceScoreCalculator
)
set_native_pose()
(in
Tumble
)
show_definition()
(in
EtableFunc
)
SCORE_LINE_STRINGS
(in
Enum
)
set_native_pose()
(in
UniformRotationMover
)
show_definition()
(in
FadeFunc
)
SCORE_LINE_STRINGS
(in
CacheableDataType
)
set_native_pose()
(in
UniformTranslationMover
)
show_definition()
(in
FlatHarmonicFunc
)
score_log_file()
(in
FilterScanFilter
)
set_native_pose()
(in
VirtualRootMover
)
show_definition()
(in
Func
)
SCORE_LONG_RANGE_ENERGIES
(in
rosetta.basic
)
set_native_pose()
(in
ddG
)
show_definition()
(in
GaussianChainDoubleFunc
)
SCORE_LONG_RANGE_ENERGIES
(in
ProfTag
)
set_native_pose()
(in
AsymFoldandDockMoveRbJumpMover
)
show_definition()
(in
GaussianChainFunc
)
SCORE_LONG_RANGE_ENERGIES
(in
rosetta.basic._basic_
)
set_native_pose()
(in
AsymFoldandDockRbTrialMover
)
show_definition()
(in
GaussianChainQuadrupleFunc
)
SCORE_MAP
(in
Enum
)
set_native_pose()
(in
InitializeByBins
)
show_definition()
(in
GaussianChainSingleFunc
)
SCORE_MAP
(in
CacheableDataType
)
set_native_pose()
(in
PerturbByBins
)
show_definition()
(in
GaussianChainTripleFunc
)
score_map()
(in
BaseJobDistributor
)
set_native_pose()
(in
ChiralMover
)
show_definition()
(in
GaussianFunc
)
score_map()
(in
PlainPdbJobDistributor
)
set_native_pose()
(in
HbsPatcher
)
show_definition()
(in
HarmonicFunc
)
score_map()
(in
PlainRawJobDistributor
)
set_native_pose()
(in
OopDPuckMinusMover
)
show_definition()
(in
IdentityFunc
)
score_map_from_scored_pose()
(in
ScoreMap
)
set_native_pose()
(in
OopDPuckPlusMover
)
show_definition()
(in
KarplusFunc
)
score_mapping()
(in
rosetta.core.io.pdb._core_io_pdb_
)
set_native_pose()
(in
OopMover
)
show_definition()
(in
LinearPenaltyFunction
)
score_matrix_rmsd()
(in
TMalign
)
set_native_pose()
(in
OopPatcher
)
show_definition()
(in
MinMultiHarmonicFunc
)
score_matrix_rmsd_sec()
(in
TMalign
)
set_native_pose()
(in
OopPuckMinusMover
)
show_definition()
(in
MixtureFunc
)
score_meta()
(in
MotifHashRigidScore
)
set_native_pose()
(in
OopPuckPlusMover
)
show_definition()
(in
PeriodicFunc
)
score_multiply()
(in
SymmetryInfo
)
set_native_pose()
(in
OopRandomPuckMover
)
show_definition()
(in
SOGFunc
)
score_multiply_factor()
(in
SymmetryInfo
)
set_native_pose()
(in
OopRandomSmallMover
)
show_definition()
(in
SOGFunc_Impl
)
SCORE_NEIGHBOR_ENERGIES
(in
rosetta.basic
)
set_native_pose()
(in
RationalMonteCarlo
)
show_definition()
(in
ScalarWeightedFunc
)
SCORE_NEIGHBOR_ENERGIES
(in
ProfTag
)
set_native_pose()
(in
JumpRotamerSidechainMover
)
show_definition()
(in
SigmoidFunc
)
SCORE_NEIGHBOR_ENERGIES
(in
rosetta.basic._basic_
)
set_native_pose()
(in
PerturbChiSidechainMover
)
show_definition()
(in
SkipViolFunc
)
score_of_bin()
(in
XformScore
)
set_native_pose()
(in
PerturbRotamerSidechainMover
)
show_definition()
(in
SoedingFunc
)
score_of_bin_normalized()
(in
XformScore
)
set_native_pose()
(in
SetChiMover
)
show_definition()
(in
SplineFunc
)
SCORE_ONEBODY_ENERGIES
(in
rosetta.basic
)
set_native_pose()
(in
SidechainMCMover
)
show_definition()
(in
SquareWell2Func
)
SCORE_ONEBODY_ENERGIES
(in
ProfTag
)
set_native_pose()
(in
SidechainMover
)
show_definition()
(in
SquareWellFunc
)
SCORE_ONEBODY_ENERGIES
(in
rosetta.basic._basic_
)
set_native_pose()
(in
SidechainMoverBase
)
show_definition()
(in
SumFunc
)
score_only()
(in
SilentFileOutputter
)
set_native_pose()
(in
DetectSymmetry
)
show_definition()
(in
TopOutFunc
)
score_only()
(in
SymDockProtocol
)
set_native_pose()
(in
ExtractAsymmetricPoseMover
)
show_definition()
(in
USOGFunc
)
score_output_file_name()
(in
MatcherTask
)
set_native_pose()
(in
ExtractAsymmetricUnitMover
)
show_definition()
(in
IgnoreSubsetConstraintSet
)
score_pairmatrix()
(in
ParallelBetaPairingPreferenceFilter
)
set_native_pose()
(in
FaSymDockingSlideTogether
)
show_definition()
(in
MaxSeqSepConstraintSet
)
score_pose()
(in
Sparta
)
set_native_pose()
(in
SetupForSymmetryMover
)
show_definitions()
(in
EnzConstraintParameters
)
score_pose_per_residue()
(in
Sparta
)
set_native_pose()
(in
SetupNCSMover
)
show_dna_geometry()
(in
rosetta.core.scoring.dna._core_scoring_dna_
)
SCORE_SETUP
(in
rosetta.basic
)
set_native_pose()
(in
SymDockingInitialPerturbation
)
show_foldtree()
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
SCORE_SETUP
(in
ProfTag
)
set_native_pose()
(in
SymDockingSlideIntoContact
)
show_header()
(in
Frame
)
SCORE_SETUP
(in
rosetta.basic._basic_
)
set_native_pose()
(in
SymEnergyCutRotamerTrialsMover
)
show_header()
(in
JumpingFrame
)
score_this_disulfide()
(in
FullatomDisulfidePotential
)
set_native_pose()
(in
SymMinMover
)
show_header()
(in
NonContinuousFrame
)
score_this_disulfide_old()
(in
FullatomDisulfidePotential
)
set_native_pose()
(in
SymPackRotamersMover
)
show_if_nonzero_weight()
(in
EMapVector
)
score_threshold()
(in
HotspotStubSet
)
set_native_pose()
(in
SymRotamerTrialsMover
)
show_internals()
(in
StrandPairing
)
score_tuple()
(in
GunnCost
)
set_native_pose()
(in
SymShakeStructureMover
)
show_line()
(in
ScoreFunction
)
score_tuple()
(in
GunnCost
)
set_native_pose()
(in
SymmetricRMSMover
)
show_line_headers()
(in
ScoreFunction
)
score_type()
(in
Constraint
)
set_native_pose()
(in
TaskAwareSymMinMover
)
show_new_base_step_params()
(in
rosetta.core.scoring.dna._core_scoring_dna_
)
score_type()
(in
DOF_Constraint
)
set_native_pose()
(in
StepWiseProteinMinimizer
)
show_nonzero()
(in
EMapVector
)
score_type()
(in
EnergyPerResidueFilter
)
set_native_pose()
(in
StepWiseProteinPoseSetup
)
show_numbers()
(in
ConstraintSet
)
score_type()
(in
ResidueIEFilter
)
set_native_pose()
(in
StepWiseRNA_PoseSetup
)
show_numbers()
(in
IgnoreSubsetConstraintSet
)
score_type()
(in
TaskAwareScoreTypeFilter
)
set_native_pose()
(in
StepWiseConnectionSampler
)
show_numbers()
(in
MaxSeqSepConstraintSet
)
score_type()
(in
SelectByDeltaScoreOperation
)
set_native_pose()
(in
StepWiseMinimizer
)
show_params()
(in
NatbiasHelicesSheetPotential
)
score_type_2_active()
(in
EnergyGraph
)
set_native_pose()
(in
StepWiseModeler
)
show_params()
(in
NatbiasHelixPairPotential
)
score_type_from_name()
(in
ScoreTypeManager
)
set_native_pose()
(in
SideChainCopier
)
show_params()
(in
EnzCstTemplateRes
)
score_type_from_name()
(in
rosetta.core.scoring._core_scoring_
)
set_native_pose()
(in
StepWisePacker
)
show_pdb_ids()
(in
PdbIdChunkFilter
)
score_type_name()
(in
TaskAwareScoreTypeFilter
)
set_native_pose()
(in
PolarHydrogenPacker
)
show_pretty()
(in
ScoreFunction
)
score_type_name()
(in
SelectByDeltaScoreOperation
)
set_native_pose()
(in
PrecomputedLibraryMover
)
show_protocol()
(in
MPFastRelaxMover
)
score_types()
(in
EnergyMethod
)
set_native_pose()
(in
StepWiseProteinBackboneSampler
)
show_rdc_values()
(in
ResidualDipolarCoupling
)
score_types_by_method_type()
(in
ScoreFunction
)
set_native_pose()
(in
StepWiseProteinCCD_Closer
)
show_residue_connections()
(in
Conformation
)
score_types_for_method()
(in
DunbrackEnergyCreator
)
set_native_pose()
(in
StepWiseProteinCCD_MultiPoseCloser
)
show_residue_task()
(in
PackerTask
)
score_types_for_method()
(in
CenRotDunEnergyCreator
)
set_native_pose()
(in
StepWiseProteinKIC_LoopBridger
)
show_residue_task()
(in
PackerTask_
)
score_types_for_method()
(in
HPatchEnergyCreator
)
set_native_pose()
(in
BulgeApplyMover
)
show_scorefxn_weight_lines()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
score_types_for_method()
(in
SurfaceEnergyCreator
)
set_native_pose()
(in
BulgeUnApplyMover
)
show_scores()
(in
DualMonteCarlo
)
score_types_for_method()
(in
CarbonHBondEnergyCreator
)
set_native_pose()
(in
RNA_ChainClosureChecker
)
show_scores()
(in
MonteCarlo
)
score_types_for_method()
(in
ConstraintsEnergyCreator
)
set_native_pose()
(in
RNA_HelixAssembler
)
show_scores()
(in
GenericMonteCarloMover
)
score_types_for_method()
(in
XtalMLEnergyCreator
)
set_native_pose()
(in
O2PrimePacker
)
show_scoring_methods()
(in
FragmentPicker
)
score_types_for_method()
(in
FullatomCustomPairDistanceEnergyCreator
)
set_native_pose()
(in
MultiPhosphateSampler
)
show_scoring_methods()
(in
FragmentScoreManager
)
score_types_for_method()
(in
CentroidDisulfideEnergyCreator
)
set_native_pose()
(in
PhosphateMover
)
show_state()
(in
MonteCarlo
)
score_types_for_method()
(in
DisulfideMatchingEnergyCreator
)
set_native_pose()
(in
SugarInstantiateMover
)
show_stream()
(in
HomogeneousTransform_T_double_T
)
score_types_for_method()
(in
FullatomDisulfideEnergyCreator
)
set_native_pose()
(in
SugarVirtualizeMover
)
show_tensor_matrix()
(in
ResidualDipolarCoupling
)
score_types_for_method()
(in
DNAChiEnergyCreator
)
set_native_pose()
(in
VirtualSugarJustInTimeInstantiator
)
show_tensor_stats()
(in
ResidualDipolarCoupling
)
score_types_for_method()
(in
DNATorsionEnergyCreator
)
set_native_pose()
(in
VirtualSugarSampler
)
show_tensor_stats_nls()
(in
ResidualDipolarCoupling
)
score_types_for_method()
(in
FA_ElecEnergyAroAllCreator
)
set_native_pose()
(in
VirtualSugarSamplerFromStringList
)
show_time()
(in
rosetta.basic._basic_
)
score_types_for_method()
(in
FA_ElecEnergyAroAroCreator
)
set_native_pose()
(in
StepWiseMonteCarlo
)
show_total_headers()
(in
Energies
)
score_types_for_method()
(in
FA_ElecEnergyCreator
)
set_native_pose()
(in
AddMover
)
show_totals()
(in
Energies
)
score_types_for_method()
(in
FA_GrpElecEnergyCreator
)
set_native_pose()
(in
AddOrDeleteMover
)
show_unmoved()
(in
AllResiduesChanged
)
score_types_for_method()
(in
RNA_FA_ElecEnergyCreator
)
set_native_pose()
(in
DeleteMover
)
show_unmoved()
(in
AllResiduesChanged
)
score_types_for_method()
(in
ElecDensAllAtomCenEnergyCreator
)
set_native_pose()
(in
FromScratchMover
)
show_valid()
(in
ABEGO_SS_Map
)
score_types_for_method()
(in
ElecDensCenEnergyCreator
)
set_native_pose()
(in
ResampleMover
)
show_values()
(in
Polynomial_1d
)
score_types_for_method()
(in
ElecDensEnergyCreator
)
set_native_pose()
(in
StepWiseMasterMover
)
show_violations()
(in
DunbrackConstraint
)
score_types_for_method()
(in
FastDensEnergyCreator
)
set_native_pose()
(in
RNA_AddDeleteMonteCarlo
)
show_violations()
(in
RotamerConstraint
)
score_types_for_method()
(in
PattersonCorrEnergyCreator
)
set_native_pose()
(in
RNA_O2PrimeMover
)
show_violations()
(in
AmbiguousConstraint
)
score_types_for_method()
(in
ElecDensAtomwiseEnergyCreator
)
set_native_pose()
(in
RNA_TorsionMover
)
show_violations()
(in
AmbiguousNMRConstraint
)
score_types_for_method()
(in
EtableClassicIntraEnergyCreator
)
set_native_pose()
(in
JumpStepWiseSampler
)
show_violations()
(in
AmbiguousNMRDistanceConstraint
)
score_types_for_method()
(in
EtableEnergyCreator
)
set_native_pose()
(in
MC_Comb
)
show_violations()
(in
AngleConstraint
)
score_types_for_method()
(in
FiberDiffractionEnergyCreator
)
set_native_pose()
(in
MC_OneTorsion
)
show_violations()
(in
AtomPairConstraint
)
score_types_for_method()
(in
FiberDiffractionEnergyDensCreator
)
set_native_pose()
(in
NoOpStepWiseSampler
)
show_violations()
(in
BackboneStubConstraint
)
score_types_for_method()
(in
ContextDependentGeometricSolEnergyCreator
)
set_native_pose()
(in
StepWiseSamplerAny
)
show_violations()
(in
BackboneStubLinearConstraint
)
score_types_for_method()
(in
ContextIndependentGeometricSolEnergyCreator
)
set_native_pose()
(in
StepWiseSamplerComb
)
show_violations()
(in
BigBinConstraint
)
score_types_for_method()
(in
ExactOccludedHbondSolEnergyCreator
)
set_native_pose()
(in
StepWiseSamplerOneTorsion
)
show_violations()
(in
BoundFunc
)
score_types_for_method()
(in
OccludedHbondSolEnergyCreator
)
set_native_pose()
(in
StepWiseSamplerOneValue
)
show_violations()
(in
ConstantConstraint
)
score_types_for_method()
(in
OccludedHbondSolEnergy_onebodyCreator
)
set_native_pose()
(in
StepWiseSamplerOneValueComb
)
show_violations()
(in
Constraint
)
score_types_for_method()
(in
HackAroEnergyCreator
)
set_native_pose()
(in
StepWiseSamplerSized
)
show_violations()
(in
ConstraintSet
)
score_types_for_method()
(in
HBondEnergyCreator
)
set_native_pose()
(in
StepWiseSamplerSizedAny
)
show_violations()
(in
Constraints
)
score_types_for_method()
(in
DDPscoreCreator
)
set_native_pose()
(in
StepWiseSamplerSizedComb
)
show_violations()
(in
CoordinateConstraint
)
score_types_for_method()
(in
LoopCloseEnergyCreator
)
set_native_pose()
(in
CopyDofStepWiseSampler
)
show_violations()
(in
DihedralConstraint
)
score_types_for_method()
(in
FaMPEnvEnergyCreator
)
set_native_pose()
(in
ResidueAlternativeStepWiseSampler
)
show_violations()
(in
DihedralPairConstraint
)
score_types_for_method()
(in
FaMPEnvSmoothEnergyCreator
)
set_native_pose()
(in
ResidueAlternativeStepWiseSamplerComb
)
show_violations()
(in
DistancePairConstraint
)
score_types_for_method()
(in
FaMPSolvEnergyCreator
)
set_native_pose()
(in
ResidueListStepWiseSampler
)
show_violations()
(in
FabConstraint
)
score_types_for_method()
(in
MPCbetaEnergyCreator
)
set_native_pose()
(in
InputStreamStepWiseSampler
)
show_violations()
(in
KofNConstraint
)
score_types_for_method()
(in
MPEnvEnergyCreator
)
set_native_pose()
(in
ProteinBetaAntiParallelStepWiseSampler
)
show_violations()
(in
LocalCoordinateConstraint
)
score_types_for_method()
(in
MPLipoEnergyCreator
)
set_native_pose()
(in
ProteinFragmentStepWiseSampler
)
show_violations()
(in
MultiConstraint
)
score_types_for_method()
(in
MPNonHelixPenaltyCreator
)
set_native_pose()
(in
ProteinMainChainStepWiseSampler
)
show_violations()
(in
NamedAngleConstraint
)
score_types_for_method()
(in
MPPairEnergyCreator
)
set_native_pose()
(in
RigidBodyStepWiseSampler
)
show_violations()
(in
NamedAtomPairConstraint
)
score_types_for_method()
(in
MPTMProjPenaltyCreator
)
set_native_pose()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
show_violations()
(in
NonResidueTypeConstraint
)
score_types_for_method()
(in
MPTerminiPenaltyCreator
)
set_native_pose()
(in
RigidBodyStepWiseSamplerWithResidueList
)
show_violations()
(in
OffsetPeriodicBoundFunc
)
score_types_for_method()
(in
BurialEnergyCreator
)
set_native_pose()
(in
RNA_ChiStepWiseSampler
)
show_violations()
(in
PeriodicBoundFunc
)
score_types_for_method()
(in
CartesianBondedEnergyCreator
)
set_native_pose()
(in
RNA_KIC_Sampler
)
show_violations()
(in
ResidueTypeConstraint
)
score_types_for_method()
(in
CenHBEnergyCreator
)
set_native_pose()
(in
RNA_KinematicCloser
)
show_violations()
(in
ResidueTypeLinkingConstraint
)
score_types_for_method()
(in
CenPairEnergyCreator
)
set_native_pose()
(in
RNA_MC_MultiSuite
)
show_violations()
(in
SequenceProfileConstraint
)
score_types_for_method()
(in
CenRotEnvEnergyCreator
)
set_native_pose()
(in
RNA_MC_Sugar
)
show_violations()
(in
SiteConstraint
)
score_types_for_method()
(in
CenRotPairEnergyCreator
)
set_native_pose()
(in
RNA_MC_Suite
)
show_violations()
(in
SiteConstraintResidues
)
score_types_for_method()
(in
ChainbreakEnergyCreator
)
set_native_pose()
(in
RNA_NucleosideStepWiseSampler
)
show_violations()
(in
DistanceFunc
)
score_types_for_method()
(in
ChemicalShiftAnisotropyEnergyCreator
)
set_native_pose()
(in
RNA_SugarStepWiseSampler
)
show_violations()
(in
CBSG_Dihedral_Func
)
score_types_for_method()
(in
ContactOrderEnergyCreator
)
set_native_pose()
(in
RNA_SuiteStepWiseSampler
)
show_violations()
(in
CB_Angle_Func
)
score_types_for_method()
(in
CustomAtomPairEnergyCreator
)
set_native_pose()
(in
StepWiseCSA_JobDistributor
)
show_violations()
(in
CaCbCbCa_Dihedral_Func
)
score_types_for_method()
(in
D2H_SA_EnergyCreator
)
set_native_pose()
(in
StepWiseJobDistributor
)
show_violations()
(in
CaCbCb_Angle_Func
)
score_types_for_method()
(in
DNA_BaseEnergyCreator
)
set_native_pose()
(in
StepWiseMonteCarloJobDistributor
)
show_violations()
(in
Cb_Distance_Func
)
score_types_for_method()
(in
DipolarCouplingEnergyCreator
)
set_native_pose()
(in
CentroidRelaxMover
)
show_violations()
(in
Cen_Distance_Func
)
score_types_for_method()
(in
DirectReadoutEnergyCreator
)
set_native_pose()
(in
FullatomRelaxMover
)
show_violations()
(in
NCaCaC_Dihedral_Func
)
score_types_for_method()
(in
DistanceChainbreakEnergyCreator
)
set_native_pose()
(in
SurfaceDockingProtocol
)
show_violations()
(in
SGSG_Dihedral_Func
)
score_types_for_method()
(in
EnergyMethodCreator
)
set_native_pose()
(in
SurfaceOrientMover
)
show_violations()
(in
SG_Dist_Func
)
score_types_for_method()
(in
EnvEnergyCreator
)
set_native_pose()
(in
SymDockBaseProtocol
)
show_violations()
(in
AmberPeriodicFunc
)
score_types_for_method()
(in
EnvSmoothEnergyCreator
)
set_native_pose()
(in
SymDockProtocol
)
show_violations()
(in
CharmmPeriodicFunc
)
score_types_for_method()
(in
Fa_MbenvEnergyCreator
)
set_native_pose()
(in
SymDockingHiRes
)
show_violations()
(in
CircularGeneral1D_Func
)
score_types_for_method()
(in
Fa_MbsolvEnergyCreator
)
set_native_pose()
(in
SymDockingLowRes
)
show_violations()
(in
CircularHarmonicFunc
)
score_types_for_method()
(in
FreeDOF_EnergyCreator
)
set_native_pose()
(in
SymFoldandDockMoveRbJumpMover
)
show_violations()
(in
CircularPowerFunc
)
score_types_for_method()
(in
GenBornEnergyCreator
)
set_native_pose()
(in
SymFoldandDockRbTrialMover
)
show_violations()
(in
CircularSigmoidalFunc
)
score_types_for_method()
(in
GoapEnergyCreator
)
set_native_pose()
(in
SymFoldandDockSlideTrialMover
)
show_violations()
(in
CircularSplineFunc
)
score_types_for_method()
(in
HybridVDW_EnergyCreator
)
set_native_pose()
(in
SymInterfaceSidechainMinMover
)
show_violations()
(in
ConstantFunc
)
score_types_for_method()
(in
IntermolEnergyCreator
)
set_native_pose()
(in
SymSidechainMinMover
)
show_violations()
(in
CountViolFunc
)
score_types_for_method()
(in
LK_BallEnergyCreator
)
set_native_pose()
(in
MPSymDockMover
)
show_violations()
(in
EtableFunc
)
score_types_for_method()
(in
LK_PolarNonPolarEnergyCreator
)
set_native_pose()
(in
AlignPoseToInvrotTreeMover
)
show_violations()
(in
FadeFunc
)
score_types_for_method()
(in
LK_hackCreator
)
set_native_pose()
(in
StoreCombinedStoredTasksMover
)
show_violations()
(in
FlatHarmonicFunc
)
score_types_for_method()
(in
LinearChainbreakEnergyCreator
)
set_native_pose()
(in
StoreCompoundTaskMover
)
show_violations()
(in
Func
)
score_types_for_method()
(in
MMBondAngleEnergyCreator
)
set_native_pose()
(in
StoreTaskMover
)
show_violations()
(in
GaussianChainDoubleFunc
)
score_types_for_method()
(in
MMBondLengthEnergyCreator
)
set_native_pose()
(in
UnfoldedStateEnergyCalculatorMover
)
show_violations()
(in
GaussianChainFunc
)
score_types_for_method()
(in
MMLJEnergyInterCreator
)
set_native_rotamer_chi()
(in
PNatRotOptEPositionData
)
show_violations()
(in
GaussianChainQuadrupleFunc
)
score_types_for_method()
(in
MMLJEnergyIntraCreator
)
set_native_rotamer_index()
(in
PNatRotOptEPositionData
)
show_violations()
(in
GaussianChainSingleFunc
)
score_types_for_method()
(in
MMTorsionEnergyCreator
)
set_native_spairset()
(in
NatbiasStrandPairPotential
)
show_violations()
(in
GaussianChainTripleFunc
)
score_types_for_method()
(in
MembraneCbetaEnergyCreator
)
set_native_task()
(in
ReplicateTask
)
show_violations()
(in
GaussianFunc
)
score_types_for_method()
(in
MembraneCenPairEnergyCreator
)
set_native_topology()
(in
PairingStatistics
)
show_violations()
(in
HarmonicFunc
)
score_types_for_method()
(in
MembraneEnvEnergyCreator
)
set_native_virtual_res()
(in
StepWiseRNA_PoseSetup
)
show_violations()
(in
IdentityFunc
)
score_types_for_method()
(in
MembraneEnvPenaltiesCreator
)
set_nativeness_high()
(in
PNatStructureOptEData
)
show_violations()
(in
KarplusFunc
)
score_types_for_method()
(in
MembraneEnvSmoothEnergyCreator
)
set_nativeness_low()
(in
PNatStructureOptEData
)
show_violations()
(in
LinearPenaltyFunction
)
score_types_for_method()
(in
MembraneLipoCreator
)
set_nblist()
(in
Energies
)
show_violations()
(in
MinMultiHarmonicFunc
)
score_types_for_method()
(in
MissingEnergyCreator
)
set_nbrs()
(in
HBondSet
)
show_violations()
(in
MixtureFunc
)
score_types_for_method()
(in
NMerPSSMEnergyCreator
)
set_ncaa_rotlib_n_bin_per_rot()
(in
ResidueType
)
show_violations()
(in
PeriodicFunc
)
score_types_for_method()
(in
NMerRefEnergyCreator
)
set_ncaa_rotlib_n_rotameric_bins()
(in
ResidueType
)
show_violations()
(in
SOGFunc
)
score_types_for_method()
(in
NMerSVMEnergyCreator
)
set_ncaa_rotlib_path()
(in
ResidueType
)
show_violations()
(in
ScalarWeightedFunc
)
score_types_for_method()
(in
OmegaTetherEnergyCreator
)
set_nchi()
(in
DunbrackRotamerSampleData
)
show_violations()
(in
SigmoidFunc
)
score_types_for_method()
(in
OtherPoseEnergyCreator
)
set_ncluster()
(in
KCluster
)
show_violations()
(in
SkipViolFunc
)
score_types_for_method()
(in
P_AA_EnergyCreator
)
set_ncopies()
(in
FragmentIO
)
show_violations()
(in
SoedingFunc
)
score_types_for_method()
(in
P_AA_pp_EnergyCreator
)
set_ncycle()
(in
DesignTask
)
show_violations()
(in
SplineFunc
)
score_types_for_method()
(in
PackStatEnergyCreator
)
set_ncycles()
(in
FlxbbDesign
)
show_violations()
(in
SquareWell2Func
)
score_types_for_method()
(in
PairEnergyCreator
)
set_ncycles()
(in
CartesianSampler
)
show_violations()
(in
SquareWellFunc
)
score_types_for_method()
(in
PeptideBondEnergyCreator
)
set_ncycles()
(in
RBSegmentRelax
)
show_violations()
(in
SumFunc
)
score_types_for_method()
(in
PoissonBoltzmannEnergyCreator
)
set_neighbor_count()
(in
PNatAAOptEPositionData
)
show_violations()
(in
TopOutFunc
)
score_types_for_method()
(in
ProClosureEnergyCreator
)
set_neighbor_dis()
(in
AntibodyDesignMover
)
show_violations()
(in
USOGFunc
)
score_types_for_method()
(in
ProQ_EnergyCreator
)
set_neighbor_distance()
(in
RestrictToCDRsAndNeighbors
)
show_violations()
(in
IgnoreSubsetConstraintSet
)
score_types_for_method()
(in
RG_Energy_FastCreator
)
set_neighborhood_parameters()
(in
RestrictToNeighborhoodOperation
)
show_violations()
(in
AmbiguousMultiConstraint
)
score_types_for_method()
(in
RG_LocalEnergyCreator
)
set_network_state()
(in
DensePDInteractionGraph
)
show_violations()
(in
BindingSiteConstraint
)
score_types_for_method()
(in
RMS_EnergyCreator
)
set_network_state()
(in
DoubleDensePDInteractionGraph
)
show_violations()
(in
COMCoordinateConstraint
)
score_types_for_method()
(in
Rama2BOffsetEnergyCreator
)
set_network_state()
(in
DoubleLazyInteractionGraph
)
show_violations()
(in
MaxSeqSepConstraintSet
)
score_types_for_method()
(in
RamachandranEnergy2BCreator
)
set_network_state()
(in
FASTERInteractionGraph
)
show_violations()
(in
SequenceCoupling1BDConstraint
)
score_types_for_method()
(in
RamachandranEnergyCreator
)
set_network_state()
(in
InteractionGraphBase
)
show_violations()
(in
SequenceCouplingConstraint
)
score_types_for_method()
(in
ReferenceEnergyCreator
)
set_network_state()
(in
LazyInteractionGraph
)
show_violations()
(in
PocketConstraint
)
score_types_for_method()
(in
ReferenceEnergyNoncanonicalCreator
)
set_network_state()
(in
LinearMemoryInteractionGraph
)
show_weighted()
(in
EMapVector
)
score_types_for_method()
(in
ResidualDipolarCouplingEnergyCreator
)
set_network_state()
(in
PDInteractionGraph
)
ShowAP
(in
rosetta.utility._utility_
)
score_types_for_method()
(in
ResidualDipolarCouplingEnergy_RohlCreator
)
set_network_state()
(in
SymmLinearMemoryInteractionGraph
)
showCachedScores()
(in
ElectronDensity
)
score_types_for_method()
(in
SA_EnergyCreator
)
set_network_state()
(in
SymmMinimalistInteractionGraph
)
ShowCAP
(in
rosetta.utility._utility_
)
score_types_for_method()
(in
SecondaryStructureEnergyCreator
)
set_network_state()
(in
MinimalistFlexbbInteractionGraph
)
showGDB()
(in
GDB
)
score_types_for_method()
(in
SequenceDependentRefEnergyCreator
)
set_new_chain_order()
(in
PDB_DReaderOptions
)
shrink()
(in
AtomID_Map_T_bool_T
)
score_types_for_method()
(in
SmoothCenPairEnergyCreator
)
set_new_conformation()
(in
Pose
)
shrink()
(in
AtomID_Map_T_core_id_AtomID_T
)
score_types_for_method()
(in
SmoothEnvEnergyCreator
)
set_new_energies_object()
(in
Pose
)
shrink()
(in
AtomID_Map_T_double_T
)
score_types_for_method()
(in
SuckerEnergyCreator
)
set_new_final_stream()
(in
Tracer
)
shrink()
(in
AtomID_Map_T_numeric_xyzVector_T_double_T__T
)
score_types_for_method()
(in
SymmetricLigandEnergyCreator
)
set_new_move_selector()
(in
StepWiseMonteCarloOptions
)
shrink()
(in
NamedAtomID_Map_T_core_id_NamedAtomID_T
)
score_types_for_method()
(in
UnfoldedStateEnergyCreator
)
set_new_rots()
(in
SpecialRotamerRSO
)
shrink()
(in
RMSVallData
)
score_types_for_method()
(in
WaterAdductHBondEnergyCreator
)
set_next_angle()
(in
BackrubMover
)
shrink()
(in
VallData
)
score_types_for_method()
(in
WaterAdductIntraEnergyCreator
)
set_next_correspondence()
(in
subset_mapping
)
SHT
(in
rosetta.numeric.fourier._numeric_fourier_
)
score_types_for_method()
(in
YHHPlanarityEnergyCreator
)
set_next_segment_id()
(in
BackrubMover
)
SHTAP
(in
rosetta.numeric.fourier._numeric_fourier_
)
score_types_for_method()
(in
pHEnergyCreator
)
set_nfrags()
(in
CartesianSampler
)
SHTCAP
(in
rosetta.numeric.fourier._numeric_fourier_
)
score_types_for_method()
(in
SugarBackboneEnergyCreator
)
set_nhits_per_match()
(in
HitHasher
)
shuffle()
(in
Cluster
)
score_types_for_method()
(in
DFIRE_EnergyCreator
)
set_nminsteps()
(in
CartesianSampler
)
shuffle_order()
(in
GreedyOptMutationMover
)
score_types_for_method()
(in
NVscoreCreator
)
set_nmoves()
(in
CentroidRelaxMover
)
shuffle_order()
(in
ParetoOptMutationMover
)
score_types_for_method()
(in
OrbitalsScoreCreator
)
set_nmoves()
(in
FullatomRelaxMover
)
shuffle_order()
(in
MatDesGreedyOptMutationMover
)
score_types_for_method()
(in
HolesEnergyCreator
)
set_no_filters()
(in
DockingProtocol
)
ShuffleFileSystemJobDistributor
(in
rosetta.protocols.jd2._protocols_jd2_
)
score_types_for_method()
(in
SurfEnergyCreator
)
set_no_frags()
(in
AnchorMoversData
)
ShuffleFileSystemJobDistributorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
score_types_for_method()
(in
SurfVolEnergyCreator
)
set_no_frags()
(in
AnchoredPerturbMover
)
ShuffleFileSystemJobDistributorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
score_types_for_method()
(in
RG_Energy_RNACreator
)
set_no_global_frame()
(in
CartesianHybridize
)
shutdown()
(in
AtomTreeDiffJobDistributor
)
score_types_for_method()
(in
RNA_BulgeEnergyCreator
)
set_no_longer_perturbed()
(in
FASTERNode
)
shutdown()
(in
BaseJobDistributor
)
score_types_for_method()
(in
RNA_FullAtomStackingEnergyCreator
)
set_no_optH()
(in
ImportPoseOptions
)
shutdown()
(in
PlainSilentFileJobDistributor
)
score_types_for_method()
(in
RNA_FullAtomVDW_BasePhosphateCreator
)
set_no_stem_copy()
(in
GraftOneCDRLoop
)
SIALIC_ACID
(in
rosetta
)
score_types_for_method()
(in
RNA_JR_SuiteEnergyCreator
)
set_non_main_chain_sugar_coords()
(in
RNA_SilentStruct
)
SIALIC_ACID
(in
rosetta.core.chemical
)
score_types_for_method()
(in
RNA_LJ_BaseEnergyCreator
)
set_noncanonical_connection()
(in
Conformation
)
SIALIC_ACID
(in
ResidueProperty
)
score_types_for_method()
(in
RNA_Mg_EnergyCreator
)
set_nonideal()
(in
RTMin
)
SIALIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
score_types_for_method()
(in
RNA_PairwiseLowResolutionEnergyCreator
)
set_nonideal()
(in
LoopHashSampler
)
sic_dock
(in
rosetta.protocols
)
score_types_for_method()
(in
RNA_SugarCloseEnergyCreator
)
set_nonideal()
(in
RRProtocolRTMin
)
SICFast
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
score_types_for_method()
(in
RNA_SuiteEnergyCreator
)
set_nonideal()
(in
RRProtocolRelax
)
SICFastAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
score_types_for_method()
(in
RNA_TorsionEnergyCreator
)
set_nonideal()
(in
CombinePoseMover
)
SICFastCAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
score_types_for_method()
(in
RNA_VDW_EnergyCreator
)
set_nonpivot_bb_torsion_id()
(in
KinematicMover
)
SICPatternAtTransform
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
score_types_for_method()
(in
StackElecEnergyCreator
)
set_nonpivot_bb_torsion_id()
(in
TorsionSweepingKinematicPerturber
)
SICPatternAtTransformAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
score_types_for_method()
(in
RNA_ChemicalShiftEnergyCreator
)
set_nonpivot_res_to_sweep()
(in
KinematicMover
)
SICPatternAtTransformCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
score_types_for_method()
(in
RNA_ChemicalMappingEnergyCreator
)
set_nonpivot_res_to_sweep()
(in
TorsionSweepingKinematicPerturber
)
side1
(in
InterfaceRegion
)
score_types_for_method()
(in
RNA_DataBackboneEnergyCreator
)
set_nonpivot_torsion_sampling()
(in
AnchoredPerturbMover
)
side1
(in
rosetta.protocols.analysis._protocols_analysis_
)
score_types_for_method()
(in
FastSAXSEnergyCreator
)
set_nonpivot_torsion_sampling()
(in
AnchoredRefineMover
)
side1
(in
rosetta.protocols.analysis
)
score_types_for_method()
(in
SAXSEnergyCreator
)
set_norepack1()
(in
DockTaskFactory
)
side2
(in
InterfaceRegion
)
score_types_for_method()
(in
SAXSEnergyCreatorCEN
)
set_norepack2()
(in
DockTaskFactory
)
side2
(in
rosetta.protocols.analysis._protocols_analysis_
)
score_types_for_method()
(in
SAXSEnergyCreatorFA
)
set_normal()
(in
MembraneEmbed
)
side2
(in
rosetta.protocols.analysis
)
score_types_for_method()
(in
symECreator
)
set_normal()
(in
EmbeddingDef
)
SIDECHAIN_CONJUGATION
(in
rosetta
)
score_types_for_method()
(in
VDW_EnergyCreator
)
set_normalize_decoy_stddev()
(in
PNatStructureOptEData
)
SIDECHAIN_CONJUGATION
(in
rosetta.core.chemical
)
score_types_for_method()
(in
AACompositionEnergyCreator
)
set_not_to_quench()
(in
SimAnnealerBase
)
SIDECHAIN_CONJUGATION
(in
rosetta.core.chemical._core_chemical_
)
score_types_for_method()
(in
NatbiasSecondaryStructureEnergyCreator
)
set_nr_fragments()
(in
LoopClosure
)
SIDECHAIN_CONJUGATION
(in
VariantType
)
score_types_for_method()
(in
EnsembleEnergyCreator
)
set_nrchi_lower_boundary()
(in
DunbrackRotamerSampleData
)
sidechain_moves
(in
rosetta.protocols.simple_moves
)
score_types_for_method()
(in
InterchainEnvEnergyCreator
)
set_nrchi_prob_minimum_for_extra_samples()
(in
SampleStrategyData
)
sidechain_sidechain_energy()
(in
CarbonHBondEnergy
)
score_types_for_method()
(in
InterchainPairEnergyCreator
)
set_nrchi_probability()
(in
DunbrackRotamerSampleData
)
sidechain_sidechain_energy()
(in
ConstraintsEnergy
)
score_types_for_method()
(in
ResidualDipolarCouplingEnergyRigidSegmentsCreator
)
set_nrchi_sample()
(in
DunbrackRotamerSampleData
)
sidechain_sidechain_energy()
(in
FullatomCustomPairDistanceEnergy
)
score_types_for_method()
(in
SpecialRotamerEnergyCreator
)
set_nrchi_start_angle()
(in
ResidueType
)
sidechain_sidechain_energy()
(in
CentroidDisulfideEnergy
)
score_types_for_method()
(in
PseudocontactShiftEnergyCreator
)
set_nrchi_symmetric()
(in
ResidueType
)
sidechain_sidechain_energy()
(in
DisulfideMatchingEnergy
)
score_types_for_method()
(in
PcsEnergyCreator
)
set_nrchi_upper_boundary()
(in
DunbrackRotamerSampleData
)
sidechain_sidechain_energy()
(in
FullatomDisulfideEnergy
)
score_types_for_method()
(in
PseudocontactShiftEnergyCreator_Ts1
)
set_nrepeat()
(in
WorkUnit_Relax
)
sidechain_sidechain_energy()
(in
DNATorsionEnergy
)
score_types_for_method()
(in
PseudocontactShiftEnergyCreator_Ts2
)
set_nres()
(in
ElectronDensity
)
sidechain_sidechain_energy()
(in
FA_ElecEnergy
)
score_types_for_method()
(in
PseudocontactShiftEnergyCreator_Ts3
)
set_nres()
(in
BackboneGridSampler
)
sidechain_sidechain_energy()
(in
FA_ElecEnergyAroAll
)
score_types_for_method()
(in
PseudocontactShiftEnergyCreator_Ts4
)
set_nres_subunit()
(in
SymmetryInfo
)
sidechain_sidechain_energy()
(in
FA_ElecEnergyAroAro
)
score_types_for_method()
(in
PDDFEnergyCreator
)
set_nrounds()
(in
ShakeStructureMover
)
sidechain_sidechain_energy()
(in
FA_GrpElecEnergy
)
score_variation()
(in
HedgeArchive
)
set_nseq()
(in
TMscoreStore
)
sidechain_sidechain_energy()
(in
RNA_FA_ElecEnergy
)
score_variation()
(in
IterativeAbrelax
)
set_nstep()
(in
MDBase
)
sidechain_sidechain_energy()
(in
ElecDensAllAtomCenEnergy
)
score_variation()
(in
IterativeBase
)
set_nsteps()
(in
WorkUnit_FragInsert
)
sidechain_sidechain_energy()
(in
ElecDensCenEnergy
)
score_variation()
(in
IterativeCentroid
)
set_nsteps()
(in
WorkUnit_KicCloser
)
sidechain_sidechain_energy()
(in
ElecDensEnergy
)
score_variation()
(in
IterativeFullatom
)
set_nsteps()
(in
WorkUnit_PartialAbinitio
)
sidechain_sidechain_energy()
(in
FastDensEnergy
)
score_variation()
(in
EvaluatedArchive
)
set_nsteps()
(in
WorkUnit_RamaPerturber
)
sidechain_sidechain_energy()
(in
PattersonCorrEnergy
)
score_variation()
(in
NormalizedEvaluatedArchive
)
set_nstruct()
(in
ArchiveBase
)
sidechain_sidechain_energy()
(in
ElecDensAtomwiseEnergy
)
score_variation()
(in
VarianceStatisticsArchive
)
set_nstruct()
(in
WorkUnit_MD
)
sidechain_sidechain_energy()
(in
AnalyticEtableEnergy
)
score_variations()
(in
HedgeArchive
)
set_nstruct()
(in
WorkUnit_bbGauss
)
sidechain_sidechain_energy()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
score_variations()
(in
IterativeAbrelax
)
set_nstruct_centroid()
(in
StepWiseProteinModelerOptions
)
sidechain_sidechain_energy()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
score_variations()
(in
IterativeBase
)
set_nstruct_centroid()
(in
StepWiseProteinBackboneSampler
)
sidechain_sidechain_energy()
(in
TableLookupEtableEnergy
)
score_variations()
(in
IterativeCentroid
)
set_nstruct_mode()
(in
BackboneGridSampler
)
sidechain_sidechain_energy()
(in
ContextDependentGeometricSolEnergy
)
score_variations()
(in
IterativeFullatom
)
set_nstruct_mode()
(in
BundleGridSampler
)
sidechain_sidechain_energy()
(in
ContextIndependentGeometricSolEnergy
)
score_variations()
(in
EvaluatedArchive
)
set_nstruct_repeats()
(in
BackboneGridSampler
)
sidechain_sidechain_energy()
(in
OccludedHbondSolEnergy
)
score_variations()
(in
NormalizedEvaluatedArchive
)
set_nstruct_repeats()
(in
BundleGridSampler
)
sidechain_sidechain_energy()
(in
HackAroEnergy
)
score_variations()
(in
VarianceStatisticsArchive
)
set_ntrial()
(in
FilterStructs
)
sidechain_sidechain_energy()
(in
HBondEnergy
)
score_zero_scores()
(in
FragmentScoreManager
)
set_ntrials()
(in
MetropolisHastingsMover
)
sidechain_sidechain_energy()
(in
DDPscore
)
ScoreCutoffFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_ntrials()
(in
SidechainMCMover
)
sidechain_sidechain_energy()
(in
FaMPSolvEnergy
)
ScoreCutoffFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_ntries_before_giving_up()
(in
GeneralizedKIC
)
sidechain_sidechain_energy()
(in
MPPairEnergy
)
ScoreCutoffFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_nu()
(in
MoveMap
)
sidechain_sidechain_energy()
(in
CartesianBondedEnergy
)
ScoreCutoffFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_nu_true_range()
(in
MoveMap
)
sidechain_sidechain_energy()
(in
CenHBEnergy
)
ScoreCutoffFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_num_bbs()
(in
RotData
)
sidechain_sidechain_energy()
(in
CenPairEnergy
)
ScoreCutoffFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_num_chi()
(in
RotData
)
sidechain_sidechain_energy()
(in
CenRotPairEnergy
)
scored_base_pair_list()
(in
RNA_FilteredBaseBaseInfo
)
set_num_clusters()
(in
RotData
)
sidechain_sidechain_energy()
(in
ContextDependentLRTwoBodyEnergy
)
scored_base_stack_list()
(in
RNA_FilteredBaseBaseInfo
)
set_num_cycles()
(in
RNA_AddDeleteMonteCarlo
)
sidechain_sidechain_energy()
(in
ContextDependentTwoBodyEnergy
)
scored_frag_close()
(in
CDRH3Modeler
)
set_num_decoys_used_in_calculations()
(in
ddGMover
)
sidechain_sidechain_energy()
(in
ContextIndependentLRTwoBodyEnergy
)
scored_frag_cycle_ratio()
(in
SlidingWindowLoopClosure
)
set_num_distinct_backbones()
(in
FlexbbNode
)
sidechain_sidechain_energy()
(in
ContextIndependentTwoBodyEnergy
)
ScoreEValuator
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_num_entities()
(in
EntityCorrespondence
)
sidechain_sidechain_energy()
(in
CustomAtomPairEnergy
)
ScoreEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_num_entity_elements()
(in
DynamicAggregateFunction
)
sidechain_sidechain_energy()
(in
DNA_BaseEnergy
)
ScoreEValuatorAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_num_entity_elements()
(in
EntityFunc
)
sidechain_sidechain_energy()
(in
Fa_MbsolvEnergy
)
ScoreEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_num_filter_tries()
(in
RefineOneCDRLoop
)
sidechain_sidechain_energy()
(in
GaussianOverlapEnergy
)
ScoreEValuatorCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_num_geometric_constraints()
(in
UpstreamDownstreamCollisionFilter
)
sidechain_sidechain_energy()
(in
GenBornEnergy
)
ScoreEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_num_neighbors_counting_self_static()
(in
Node
)
sidechain_sidechain_energy()
(in
GoapEnergy
)
scorefile_name()
(in
FileJobOutputter
)
set_num_nodes()
(in
Graph
)
sidechain_sidechain_energy()
(in
HybridVDW_Energy
)
ScoreFileData
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_num_nodes()
(in
DenseEnergyContainer
)
sidechain_sidechain_energy()
(in
LK_BallEnergy
)
ScoreFileDataAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_num_nodes()
(in
LREnergyContainer
)
sidechain_sidechain_energy()
(in
LK_PolarNonPolarEnergy
)
ScoreFileDataCAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_num_nodes()
(in
OneToAllEnergyContainer
)
sidechain_sidechain_energy()
(in
LK_hack
)
ScoreFileSilentStruct
(in
rosetta.core.io.silent._core_io_silent_
)
set_num_nodes()
(in
PeptideBondedEnergyContainer
)
sidechain_sidechain_energy()
(in
LongRangeTwoBodyEnergy
)
ScoreFileSilentStructAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_num_nodes()
(in
CstEnergyContainer
)
sidechain_sidechain_energy()
(in
MMBondAngleEnergy
)
ScoreFileSilentStructCAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_num_nodes()
(in
CentroidDisulfideEnergyContainer
)
sidechain_sidechain_energy()
(in
MMBondLengthEnergy
)
ScoreFileSilentStructCreator
(in
rosetta.core.io.silent._core_io_silent_
)
set_num_nodes()
(in
DisulfideMatchingEnergyContainer
)
sidechain_sidechain_energy()
(in
MMLJEnergyInter
)
ScoreFileSilentStructCreatorAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_num_nodes()
(in
FullatomDisulfideEnergyContainer
)
sidechain_sidechain_energy()
(in
MMLJEnergyIntra
)
ScoreFileSilentStructCreatorCAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_num_npd_properties()
(in
MPIMultistateFitnessFunction
)
sidechain_sidechain_energy()
(in
MMTorsionEnergy
)
ScoreFunction
(in
rosetta.core.scoring._core_scoring_
)
set_num_pack_daemons()
(in
MPIMultistateFitnessFunction
)
sidechain_sidechain_energy()
(in
MembraneCenPairEnergy
)
scorefunction()
(in
SimpleInteractionGraph
)
set_num_pose_minimize()
(in
StepWiseProteinMinimizer
)
sidechain_sidechain_energy()
(in
PairEnergy
)
scorefunction()
(in
BluePrintBDR
)
set_num_pose_minimize()
(in
StepWiseBasicOptions
)
sidechain_sidechain_energy()
(in
PeptideBondEnergy
)
scorefunction()
(in
SetSecStructEnergies
)
set_num_random_samples()
(in
StepWiseSampleAndScreen
)
sidechain_sidechain_energy()
(in
PoissonBoltzmannEnergy
)
scorefunction()
(in
VarLengthBuild
)
set_num_random_samples()
(in
StepWiseProteinCCD_MultiPoseCloser
)
sidechain_sidechain_energy()
(in
ProClosureEnergy
)
scorefunction()
(in
SidechainMCMover
)
set_num_random_samples()
(in
StepWiseBasicOptions
)
sidechain_sidechain_energy()
(in
Rama2BOffsetEnergy
)
ScoreFunctionAP
(in
rosetta.core.scoring._core_scoring_
)
set_num_restypes()
(in
TargetRotamerCoords
)
sidechain_sidechain_energy()
(in
RamachandranEnergy2B
)
ScoreFunctionCAP
(in
rosetta.core.scoring._core_scoring_
)
set_num_sa()
(in
FASTER_IG_Repacker
)
sidechain_sidechain_energy()
(in
ShortRangeTwoBodyEnergy
)
ScoreFunctionFactory
(in
rosetta.core.scoring._core_scoring_
)
set_num_sa_trajectories()
(in
FASTERAnnealer
)
sidechain_sidechain_energy()
(in
SmoothCenPairEnergy
)
ScoreFunctionFactoryAP
(in
rosetta.core.scoring._core_scoring_
)
set_num_states_for_node()
(in
InteractionGraphBase
)
sidechain_sidechain_energy()
(in
SuckerEnergy
)
ScoreFunctionFactoryCAP
(in
rosetta.core.scoring._core_scoring_
)
set_num_states_per_backbone()
(in
FlexbbNode
)
sidechain_sidechain_energy()
(in
TwoBodyEnergy
)
ScoreFunctionFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_num_target_rotamers()
(in
TargetRotamerCoords
)
sidechain_sidechain_energy()
(in
WaterAdductHBondEnergy
)
ScoreFunctionFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_num_to_propagate()
(in
GeneticAlgorithm
)
sidechain_sidechain_energy()
(in
DFIRE_Energy
)
ScoreFunctionFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_num_to_propagate()
(in
GeneticAlgorithmBase
)
sidechain_sidechain_energy()
(in
OrbitalsScore
)
ScoreFunctionFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_num_trials()
(in
RationalMonteCarlo
)
sidechain_sidechain_energy()
(in
RNA_FullAtomStackingEnergy
)
ScoreFunctionFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_num_vertices()
(in
UpperEdgeGraph_T_core_conformation_PointGraphVertexData_core_conformation_PointGraphEdgeData_T
)
sidechain_sidechain_energy()
(in
RNA_JR_SuiteEnergy
)
ScoreFunctionFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_number_of_energy_sum_vertex_groups()
(in
InteractionGraphBase
)
sidechain_sidechain_energy()
(in
RNA_LJ_BaseEnergy
)
ScoreFunctionInfo
(in
rosetta.core.scoring._core_scoring_
)
set_number_of_moves()
(in
SmallMinCCDTrial
)
sidechain_sidechain_energy()
(in
RNA_Mg_Energy
)
ScoreFunctionInfoAP
(in
rosetta.core.scoring._core_scoring_
)
set_numbering_scheme()
(in
CDRClusterFeatures
)
sidechain_sidechain_energy()
(in
RNA_PairwiseLowResolutionEnergy
)
ScoreFunctionInfoCAP
(in
rosetta.core.scoring._core_scoring_
)
set_nus()
(in
MoveMap
)
sidechain_sidechain_energy()
(in
RNA_SuiteEnergy
)
ScoreFunctionLoader
(in
rosetta.protocols.jd2.parser._protocols_jd2_parser_
)
set_o2prime_legacy_mode()
(in
StepWiseRNA_ModelerOptions
)
sidechain_sidechain_energy()
(in
RNA_TorsionEnergy
)
ScoreFunctionLoaderAP
(in
rosetta.protocols.jd2.parser._protocols_jd2_parser_
)
set_o2prime_legacy_mode()
(in
StepWiseMonteCarloOptions
)
sidechain_sidechain_energy()
(in
RNA_VDW_Energy
)
ScoreFunctionLoaderCAP
(in
rosetta.protocols.jd2.parser._protocols_jd2_parser_
)
set_obey_ENDMDL()
(in
PDB_DReaderOptions
)
sidechain_sidechain_energy()
(in
StackElecEnergy
)
ScoreFunctionLoaderCreator
(in
rosetta.protocols.jd2.parser._protocols_jd2_parser_
)
set_occupied_space_bounding_box()
(in
Matcher
)
sidechain_sidechain_energy()
(in
RNA_DataBackboneEnergy
)
ScoreFunctionLoaderCreatorAP
(in
rosetta.protocols.jd2.parser._protocols_jd2_parser_
)
set_occupied_space_bounding_box()
(in
MatcherTask
)
sidechain_sidechain_energy()
(in
symEnergy
)
ScoreFunctionLoaderCreatorCAP
(in
rosetta.protocols.jd2.parser._protocols_jd2_parser_
)
set_occupied_space_hash()
(in
DownstreamBuilder
)
sidechain_sidechain_energy()
(in
InterchainPairEnergy
)
scorefxn()
(in
AbscriptStageMover
)
set_offset()
(in
SequenceMapping
)
sidechainAtoms_begin()
(in
Residue
)
scorefxn()
(in
GreedyOptMutationMover
)
set_offset()
(in
RDAT
)
SidechainContactDistCutoff
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
scorefxn()
(in
ParetoOptMutationMover
)
set_ok_to_increment()
(in
StepWiseScreener
)
SidechainContactDistCutoffAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
scorefxn()
(in
PointMutationCalculator
)
set_omega()
(in
Pose
)
SidechainContactDistCutoffCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
scorefxn()
(in
DockingHighRes
)
set_omega0()
(in
MakeBundleHelix
)
SideChainCopier
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
scorefxn()
(in
TotalScoreFeatures
)
set_omega0()
(in
BundleParameters
)
SideChainCopierAP
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
scorefxn()
(in
DesignTask
)
set_omega0_copies_pitch_instead()
(in
PerturbBundleOptions
)
SideChainCopierCAP
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
scorefxn()
(in
EvaluatedArchive
)
set_omega1()
(in
MakeBundleHelix
)
SIDECHAINMCMOVER
(in
rosetta.basic
)
scorefxn()
(in
LoopClosure
)
set_omega1()
(in
BundleParameters
)
SIDECHAINMCMOVER
(in
ProfTag
)
scorefxn()
(in
SlidingWindowLoopClosure
)
set_omg()
(in
RotData
)
SIDECHAINMCMOVER
(in
rosetta.basic._basic_
)
scorefxn()
(in
LoopMover
)
set_one_body_energy()
(in
DoubleLazyNode
)
SidechainMCMover
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
LoopRefineInnerCycle
)
set_one_body_energy()
(in
LazyNode
)
SidechainMCMoverAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
MatDesGreedyOptMutationMover
)
set_one_body_energy()
(in
LinearMemNode
)
SidechainMCMoverCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
MatDesPointMutationCalculator
)
set_one_body_energy()
(in
OnTheFlyNode
)
SidechainMCMoverCreator
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
MDBase
)
set_one_body_energy()
(in
SymmLinearMemNode
)
SidechainMCMoverCreatorAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
BindingStrainFilter
)
set_one_body_energy()
(in
SymmMinimalistNode
)
SidechainMCMoverCreatorCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
FilterScanFilter
)
set_one_body_energy()
(in
SymmOnTheFlyNode
)
SidechainMetropolisHastingsMover
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
scorefxn()
(in
HotspotDisjointedFoldTreeMover
)
set_one_body_energy_for_node_state()
(in
OnTheFlyInteractionGraph
)
SidechainMetropolisHastingsMoverAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
scorefxn()
(in
RandomMutation
)
set_one_body_energy_for_node_state()
(in
SymmOnTheFlyInteractionGraph
)
SidechainMetropolisHastingsMoverCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
scorefxn()
(in
SeedFoldTree
)
set_only_enumerate_non_match_redundant_ligand_rotamers()
(in
MatcherTask
)
SidechainMetropolisHastingsMoverCreator
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
scorefxn()
(in
AlaScan
)
set_only_stage4()
(in
MembraneAbinitio
)
SidechainMetropolisHastingsMoverCreatorAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
scorefxn()
(in
DdGScan
)
set_open_mode()
(in
FileListResourceLocator
)
SidechainMetropolisHastingsMoverCreatorCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
scorefxn()
(in
DeltaFilter
)
set_open_mode()
(in
FileSystemResourceLocator
)
SidechainMinMover
(in
rosetta.protocols.docking._protocols_docking_
)
scorefxn()
(in
EnergyPerResidueFilter
)
set_optimize_cyclic_threshold()
(in
PeptideDeriverFilter
)
SidechainMinMoverAP
(in
rosetta.protocols.docking._protocols_docking_
)
scorefxn()
(in
RelativePoseFilter
)
set_optimize_memory_usage()
(in
StepWiseRNA_Clusterer
)
SidechainMinMoverCAP
(in
rosetta.protocols.docking._protocols_docking_
)
scorefxn()
(in
ResidueIEFilter
)
set_options()
(in
StepWiseConnectionSampler
)
SIDECHAINMOVER
(in
rosetta.basic
)
scorefxn()
(in
RotamerBoltzmannWeight
)
set_options()
(in
StepWiseModeler
)
SIDECHAINMOVER
(in
ProfTag
)
scorefxn()
(in
TaskAwareScoreTypeFilter
)
set_options()
(in
VirtualSugarJustInTimeInstantiator
)
SIDECHAINMOVER
(in
rosetta.basic._basic_
)
scorefxn()
(in
AddChainMover
)
set_options()
(in
StepWiseMonteCarlo
)
SidechainMover
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
ChangeAndResetFoldTreeMover
)
set_options()
(in
AddOrDeleteMover
)
SidechainMoverAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
ForceDisulfidesMover
)
set_options()
(in
DeleteMover
)
SidechainMoverBase
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
GenericMonteCarloMover
)
set_options()
(in
ResampleMover
)
SidechainMoverBaseAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
RepackSidechainsMover
)
set_options()
(in
StepWiseMasterMover
)
SidechainMoverBaseCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
SwitchChainOrderMover
)
set_options()
(in
WorkUnitBase
)
SidechainMoverCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
ddG
)
set_OrbH_features_data()
(in
OrbitalsFeatures
)
SidechainMoverCreator
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
StepWiseModeler
)
set_orbital_icoor_id()
(in
ResidueType
)
SidechainMoverCreatorAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
StepWiseMasterPacker
)
set_orbital_xyz()
(in
Residue
)
SidechainMoverCreatorCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
scorefxn()
(in
SelectByDeltaScoreOperation
)
set_OrbOrb_features_data()
(in
OrbitalsFeatures
)
SidechainRmsdFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
scorefxn_cen_cst()
(in
LocalInserter_SimpleMin
)
set_order_by_energy()
(in
SilentFilePoseInputStream
)
SidechainRmsdFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
scorefxn_docking()
(in
DockMCMProtocol
)
set_origin()
(in
NonPlaidFingerprint
)
SidechainRmsdFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
scorefxn_low()
(in
DockingEnsemble
)
set_origin_away_from_eggshell()
(in
NonPlaidFingerprint
)
SidechainRmsdFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
scorefxn_minimize()
(in
DesignRepackMover
)
set_origin_away_from_eggshell_plane()
(in
NonPlaidFingerprint
)
SidechainRmsdFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
scorefxn_pack()
(in
DockingHighRes
)
set_origin_away_from_protein_center()
(in
NonPlaidFingerprint
)
SidechainRmsdFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
scorefxn_packing()
(in
DockMCMProtocol
)
set_origin_from_option_()
(in
NonPlaidFingerprint
)
sigma()
(in
ChemicalShiftSequence
)
scorefxn_rama_cst()
(in
LocalInserter_SimpleMin
)
set_origin_from_residue()
(in
NonPlaidFingerprint
)
sigma()
(in
DimerPairing
)
scorefxn_repack()
(in
DesignRepackMover
)
set_original_pose()
(in
PrepareForFullatom
)
sigma1()
(in
CSA
)
scorefxns()
(in
LoopRelaxMover
)
set_original_scaffold_build_points()
(in
Matcher
)
sigma2()
(in
CSA
)
ScoreJumpFileSilentStruct
(in
rosetta.core.io.silent._core_io_silent_
)
set_original_scaffold_build_points()
(in
MatcherTask
)
sigma3()
(in
CSA
)
ScoreJumpFileSilentStructAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_original_scaffold_build_points_for_constraint()
(in
Matcher
)
SigmaOrbitalElectronegativityMulliken
(in
Properties
)
ScoreJumpFileSilentStructCAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_original_scaffold_build_points_for_geometric_constraint()
(in
MatcherTask
)
SigmaOrbitalElectronegativityMulliken
(in
GasteigerAtomTypeData
)
ScoreJumpFileSilentStructCreator
(in
rosetta.core.io.silent._core_io_silent_
)
set_other_defaults_from_tag()
(in
MakeBundle
)
SigmaOrbitalElectronegativityPauling
(in
Properties
)
ScoreJumpFileSilentStructCreatorAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_other_helix_params_from_tag()
(in
MakeBundle
)
SigmaOrbitalElectronegativityPauling
(in
GasteigerAtomTypeData
)
ScoreJumpFileSilentStructCreatorCAP
(in
rosetta.core.io.silent._core_io_silent_
)
set_other_pose_list()
(in
FullModelInfo
)
SigmaValenceStateElectronAffinity
(in
Properties
)
scoreline_prefix()
(in
SilentStruct
)
set_out()
(in
FilterReporterMover
)
SigmaValenceStateElectronAffinity
(in
GasteigerAtomTypeData
)
ScoreMap
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_out_path()
(in
StepWiseMonteCarlo
)
SigmaValenceStateIonizationPotential
(in
Properties
)
ScoreMapAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_outer_cycles()
(in
AntibodyDesignMover
)
SigmaValenceStateIonizationPotential
(in
GasteigerAtomTypeData
)
ScoreMapCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_outer_cycles()
(in
DockingLowRes
)
Sigmoid
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
ScoreMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_outer_cycles()
(in
DockingProtocol
)
sigmoid()
(in
SmoothScoreTermCoeffs
)
ScoreMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_outer_loop_cycles()
(in
CentroidRelaxMover
)
sigmoid_deps_dr()
(in
Coulomb
)
ScoreMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_output()
(in
MatchScoreWriter
)
sigmoid_eps()
(in
Coulomb
)
ScoreMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_output_cluster_size()
(in
StepWiseBasicOptions
)
sigmoid_filter()
(in
MultipleSigmoids
)
ScoreMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_output_extra_RMSDs()
(in
StepWiseWorkingParametersSetup
)
SIGMOID_WEIGHTED_CEN_LIST
(in
Enum
)
ScoreMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_output_extra_RMSDs()
(in
StepWiseWorkingParameters
)
SIGMOID_WEIGHTED_CEN_LIST
(in
CacheableDataType
)
ScoreOnlyJobOutputter
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_output_file_name()
(in
BasicJob
)
SIGMOID_WEIGHTED_D_CEN_LIST
(in
Enum
)
ScoreOnlyJobOutputterAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_output_filename()
(in
MatchScoreWriter
)
SIGMOID_WEIGHTED_D_CEN_LIST
(in
CacheableDataType
)
ScoreOnlyJobOutputterCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_output_filename()
(in
StepWiseRNA_CombineLongLoopFilterer
)
SigmoidAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
ScoreOnlyJobOutputterCreator
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_output_filters()
(in
RNA_DeNovoProtocol
)
SigmoidCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
ScoreOnlyJobOutputterCreatorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_output_level()
(in
RRReporterSQLite
)
SigmoidFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
ScoreOnlyJobOutputterCreatorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_output_minimized_pose_list()
(in
StepWiseBasicOptions
)
SigmoidFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
SCORER
(in
rosetta.protocols.stepwise.screener
)
set_output_name()
(in
MetropolisHastingsMover
)
SigmoidFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
SCORER
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_output_pdb()
(in
StepWiseRNA_Clusterer
)
SigmoidFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
Scorer
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_output_pdb()
(in
StepWiseRNA_PoseSetup
)
SigmoidFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
SCORER
(in
StepWiseScreenerType
)
set_output_pdb()
(in
RNA_VDW_BinChecker
)
SigmoidFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
ScorerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_output_period()
(in
RNA_AddDeleteMonteCarlo
)
sign()
(in
rosetta.numeric._numeric_
)
ScorerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_output_prefix()
(in
ContactMap
)
sign1()
(in
DimerPairing
)
scores
(in
rosetta.core.fragment.picking_old.vall
)
set_output_res_num()
(in
rosetta.protocols.farna._protocols_farna_
)
sign2()
(in
DimerPairing
)
scores
(in
rosetta.protocols.frag_picker
)
set_output_writer()
(in
MatchProcessor
)
signals
(in
rosetta.core.conformation
)
scores
(in
rosetta.protocols.sic_dock
)
set_overall_aa_probabilities()
(in
ResidueProbDesignOperation
)
signals
(in
rosetta.core.pose
)
scores()
(in
VallLibrarian
)
set_overlap()
(in
SecondaryStructureSelector
)
signals
(in
rosetta.utility
)
scores()
(in
AtomTreeDiff
)
set_overlap()
(in
CartesianSampler
)
signature_string()
(in
PDBWriter
)
scores()
(in
SequenceAlignment
)
set_owner()
(in
Energies
)
silent
(in
rosetta.core.io
)
scores_present()
(in
ScoreFunctionInfo
)
set_owner()
(in
EnvClaim
)
silent()
(in
LineMinimizationAlgorithm
)
ScoreStructJSON
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_owner()
(in
FlexbbRotamerSet
)
silent()
(in
MinimizerOptions
)
ScoreStructJSONAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_pack()
(in
Interface
)
silent_energies()
(in
SilentStruct
)
ScoreStructJSONCAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_pack_all_side_chains()
(in
StepWisePacker
)
silent_file()
(in
StepWiseBasicOptions
)
ScoreStructText
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_pack_input()
(in
InterfaceAnalyzerMover
)
silent_file_data()
(in
SilentFilePoseInputStream
)
ScoreStructTextAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_pack_missing_sidechains()
(in
ImportPoseOptions
)
silent_file_data()
(in
LazySilentFileJobInputter
)
ScoreStructTextCAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
set_pack_o2prime_hydrogens()
(in
StepWisePacker
)
silent_file_data()
(in
SilentFileJobInputter
)
ScoreType
(in
rosetta.core.scoring._core_scoring_
)
set_pack_score_func()
(in
LHRepulsiveRamp
)
silent_file_data()
(in
StepWiseLegacyClustererSilentBased
)
ScoreTypeFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_pack_score_func()
(in
RefineBetaBarrel
)
SILENT_FILL_POSE
(in
rosetta.basic
)
ScoreTypeFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_pack_scorefunction()
(in
CartesianHybridize
)
SILENT_FILL_POSE
(in
ProfTag
)
ScoreTypeFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_pack_separated()
(in
InterfaceAnalyzerMover
)
SILENT_FILL_POSE
(in
rosetta.basic._basic_
)
ScoreTypeFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_pack_separated()
(in
InterfaceFeatures
)
SILENT_FILL_STRUCT
(in
rosetta.basic
)
ScoreTypeFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_pack_shell()
(in
MutateFrameworkForCluster
)
SILENT_FILL_STRUCT
(in
ProfTag
)
ScoreTypeFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_pack_together()
(in
InterfaceFeatures
)
SILENT_FILL_STRUCT
(in
rosetta.basic._basic_
)
ScoreTypeFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_pack_weights()
(in
StepWiseProteinModelerOptions
)
silent_in()
(in
Batch
)
ScoreTypeFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_packer()
(in
DockingEnsemble
)
silent_out()
(in
Batch
)
ScoreTypeFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_packer_task()
(in
ClashBasedRepackShellSelector
)
SILENT_READ_TAG_TEST
(in
rosetta.basic
)
ScoreTypeFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_packer_task()
(in
CoupledMover
)
SILENT_READ_TAG_TEST
(in
ProfTag
)
ScoreTypeFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_packertask()
(in
DesignTask
)
SILENT_READ_TAG_TEST
(in
rosetta.basic._basic_
)
ScoreTypeFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_packonly_after_graft()
(in
AntibodyModelerProtocol
)
SILENT_SET_POSE_COORDS
(in
rosetta.basic
)
ScoreTypeManager
(in
rosetta.core.scoring._core_scoring_
)
set_packonly_after_graft()
(in
GraftCDRLoopsProtocol
)
SILENT_SET_POSE_COORDS
(in
ProfTag
)
ScoreTypeManagerAP
(in
rosetta.core.scoring._core_scoring_
)
set_pair_overlap_tolerance()
(in
BumpGrid
)
SILENT_SET_POSE_COORDS
(in
rosetta.basic._basic_
)
ScoreTypeManagerCAP
(in
rosetta.core.scoring._core_scoring_
)
set_pairings_file()
(in
FoldTreeHybridize
)
silent_struct_output_list()
(in
StepWiseLegacyClustererSilentBased
)
ScoreTypesRegistry
(in
rosetta
)
set_parallel_weight()
(in
SecondaryStructureWeights
)
SilentEnergy
(in
rosetta.core.io.silent._core_io_silent_
)
scoring
(in
rosetta.core
)
set_param_cache()
(in
EnzdesCstCache
)
SilentEnergyAP
(in
rosetta.core.io.silent._core_io_silent_
)
scoring
(in
rosetta.protocols
)
set_param_index()
(in
EnzCstTemplateRes
)
SilentEnergyCAP
(in
rosetta.core.io.silent._core_io_silent_
)
scoring()
(in
Energies
)
set_parameter()
(in
AtomType
)
SilentFileData
(in
rosetta.core.io.silent._core_io_silent_
)
scoring_begin()
(in
Pose
)
set_parameter()
(in
MMAtomType
)
SilentFileDataAP
(in
rosetta.core.io.silent._core_io_silent_
)
scoring_begin()
(in
Energies
)
set_parameter()
(in
OrbitalType
)
SilentFileDataCAP
(in
rosetta.core.io.silent._core_io_silent_
)
scoring_end()
(in
Pose
)
set_parameter()
(in
FullModelParameters
)
SilentFileInputter
(in
rosetta.protocols.inputter._protocols_inputter_
)
scoring_end()
(in
Energies
)
set_parameter_as_res_list()
(in
FullModelParameters
)
SilentFileInputterAP
(in
rosetta.protocols.inputter._protocols_inputter_
)
scoring_grid
(in
rosetta.protocols.qsar
)
set_parameter_as_res_list_in_pairs()
(in
FullModelParameters
)
SilentFileInputterCAP
(in
rosetta.protocols.inputter._protocols_inputter_
)
scoring_matrix()
(in
MatrixScoringScheme
)
set_parameter_as_res_lists()
(in
FullModelParameters
)
SilentFileJobInputter
(in
rosetta.protocols.jd2._protocols_jd2_
)
scoring_schemes()
(in
CompositeScoringScheme
)
set_parameters_index()
(in
PerturbBundleHelix
)
SilentFileJobInputterAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringManager
(in
rosetta.core.scoring._core_scoring_
)
set_parameters_set_index()
(in
PerturbBundleHelix
)
SilentFileJobInputterCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringManagerAP
(in
rosetta.core.scoring._core_scoring_
)
set_params()
(in
NatbiasHelicesSheetPotential
)
SilentFileJobInputterCreator
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringManagerCAP
(in
rosetta.core.scoring._core_scoring_
)
set_params()
(in
NatbiasHelixPairPotential
)
SilentFileJobInputterCreatorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringScheme
(in
rosetta.core.sequence._core_sequence_
)
set_params_angle_pot()
(in
NatbiasHelixPairPotential
)
SilentFileJobInputterCreatorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringSchemeAP
(in
rosetta.core.sequence._core_sequence_
)
set_params_distance_pot()
(in
NatbiasHelixPairPotential
)
SilentFileJobOutputter
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringSchemeCAP
(in
rosetta.core.sequence._core_sequence_
)
set_paratope_cdrs()
(in
AntibodyDesignMover
)
SilentFileJobOutputterAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringSchemeFactory
(in
rosetta.core.sequence._core_sequence_
)
set_parent()
(in
HierarchicalDataMap
)
SilentFileJobOutputterCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringSchemeFactoryAP
(in
rosetta.core.sequence._core_sequence_
)
set_parent()
(in
DOF_Node
)
SilentFileJobOutputterCreator
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringSchemeFactoryCAP
(in
rosetta.core.sequence._core_sequence_
)
set_parent()
(in
SmallMol
)
SilentFileJobOutputterCreatorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringSecMatchRPE
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_parin_favorite_output()
(in
StepWiseProteinPoseSetup
)
SilentFileJobOutputterCreatorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ScoringSecMatchRPEAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_parin_favorite_output()
(in
StepWiseRNA_ModelerOptions
)
SilentFileLoader
(in
rosetta.core.io.silent._core_io_silent_
)
ScoringSecMatchRPECAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_parin_favorite_output()
(in
StepWiseRNA_CombineLongLoopFilterer
)
SilentFileLoaderAP
(in
rosetta.core.io.silent._core_io_silent_
)
scratch_dir()
(in
ExternalEvaluator
)
set_partition_definition()
(in
O2PrimePacker
)
SilentFileLoaderCAP
(in
rosetta.core.io.silent._core_io_silent_
)
scratch_pose()
(in
BasePairStepLibrary
)
set_partition_definition()
(in
StepWiseBasicWorkingParameters
)
SilentFileLoaderCreator
(in
rosetta.core.io.silent._core_io_silent_
)
screen()
(in
RNA_TorsionScreener
)
set_partners()
(in
DockSetupMover
)
SilentFileLoaderCreatorAP
(in
rosetta.core.io.silent._core_io_silent_
)
screen_all()
(in
MultiPhosphateSampler
)
set_partners()
(in
DockingHighRes
)
SilentFileLoaderCreatorCAP
(in
rosetta.core.io.silent._core_io_silent_
)
screen_phosphate()
(in
PhosphateMover
)
set_partners()
(in
DockingProtocol
)
SilentFileOptions
(in
rosetta.core.io.silent._core_io_silent_
)
screener
(in
rosetta.protocols.stepwise.legacy
)
set_partners()
(in
EllipsoidalRandomizationMover
)
SilentFileOptionsAP
(in
rosetta.core.io.silent._core_io_silent_
)
screener
(in
rosetta.protocols.stepwise.sampler
)
set_partners()
(in
TemperedDocking
)
SilentFileOptionsCAP
(in
rosetta.core.io.silent._core_io_silent_
)
screener
(in
rosetta.protocols.stepwise
)
set_PBP_clustering_at_chain_closure()
(in
StepWiseRNA_Clusterer
)
SilentFileOptionsCreator
(in
rosetta.core.io.silent._core_io_silent_
)
ScreeningFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_PBP_clustering_at_chain_closure()
(in
StepWiseRNA_ModelerOptions
)
SilentFileOptionsCreatorAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScreeningFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_pdb_output()
(in
BackboneGridSampler
)
SilentFileOptionsCreatorCAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScreeningFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_pdb_output()
(in
BundleGridSampler
)
SilentFileOutputter
(in
rosetta.protocols.outputter._protocols_outputter_
)
ScreeningFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_pdb_prefix()
(in
BackboneGridSampler
)
SilentFileOutputterAP
(in
rosetta.protocols.outputter._protocols_outputter_
)
ScreeningFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_pdb_prefix()
(in
BundleGridSampler
)
SilentFileOutputterCAP
(in
rosetta.protocols.outputter._protocols_outputter_
)
ScreeningFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_pdb_source()
(in
StrandFragment
)
SilentFilePoseInputStream
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
ScreeningJobInputter
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_penalty()
(in
MembraneEmbed
)
SilentFilePoseInputStreamAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
ScreeningJobInputterAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_pep_lengths()
(in
PeptideDeriverFilter
)
SilentFilePoseInputStreamCAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
ScreeningJobInputterCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_peptide_chain()
(in
FlexPepDockingFlags
)
SilentStruct
(in
rosetta.core.io.silent._core_io_silent_
)
ScreeningJobInputterCreator
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_peptide_chain()
(in
DisulfideInsertionMover
)
SilentStructAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScreeningJobInputterCreatorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_peptoid_rotlib_n_bin_per_rot()
(in
ResidueType
)
SilentStructCAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScreeningJobInputterCreatorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_peptoid_rotlib_n_rotameric_bins()
(in
ResidueType
)
SilentStructCreator
(in
rosetta.core.io.silent._core_io_silent_
)
ScriptCM
(in
rosetta.protocols.environment._protocols_environment_
)
set_peptoid_rotlib_path()
(in
ResidueType
)
SilentStructCreatorAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScriptCMAP
(in
rosetta.protocols.environment._protocols_environment_
)
set_per_residue_controls()
(in
CartesianHybridize
)
SilentStructCreatorCAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScriptCMCAP
(in
rosetta.protocols.environment._protocols_environment_
)
set_per_residue_controls()
(in
FoldTreeHybridize
)
SilentStructFactory
(in
rosetta.core.io.silent._core_io_silent_
)
ScriptCMCreator
(in
rosetta.protocols.environment._protocols_environment_
)
set_perform_filters()
(in
StepWiseRNA_Clusterer
)
SilentStructFactoryAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScriptCMCreatorAP
(in
rosetta.protocols.environment._protocols_environment_
)
set_perform_minimizer_run()
(in
RNA_Minimizer
)
SilentStructFactoryCAP
(in
rosetta.core.io.silent._core_io_silent_
)
ScriptCMCreatorCAP
(in
rosetta.protocols.environment._protocols_environment_
)
set_perform_score_diff_cut()
(in
StepWiseRNA_Clusterer
)
SilentStructStore
(in
rosetta.protocols.wum._protocols_wum_
)
sd()
(in
BoundFunc
)
set_perform_VDW_rep_screen()
(in
StepWiseRNA_Clusterer
)
SilentStructStoreAP
(in
rosetta.protocols.wum._protocols_wum_
)
sd()
(in
CircularHarmonicFunc
)
set_permitted_overlap()
(in
MatcherTask
)
SilentStructStoreCAP
(in
rosetta.protocols.wum._protocols_wum_
)
sd()
(in
FlatHarmonicFunc
)
set_perturb_CCD_off()
(in
AnchoredPerturbMover
)
SilentTrajectoryRecorder
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
sd()
(in
HarmonicFunc
)
set_perturb_cycles()
(in
AnchoredPerturbMover
)
SilentTrajectoryRecorderAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
sd()
(in
MinMultiHarmonicFunc
)
set_perturb_KIC_off()
(in
AnchoredPerturbMover
)
SilentTrajectoryRecorderCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
sd()
(in
SetupNCSMover
)
set_perturb_show()
(in
AnchoredPerturbMover
)
SilentTrajectoryRecorderCreator
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
sd_ang()
(in
CentroidRotamerSampleData
)
set_perturb_temp()
(in
AnchoredPerturbMover
)
SilentTrajectoryRecorderCreatorAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
sd_dih()
(in
CentroidRotamerSampleData
)
set_perturb_type()
(in
AntibodyModelerProtocol
)
SilentTrajectoryRecorderCreatorCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
sd_dis()
(in
CentroidRotamerSampleData
)
set_perturb_type()
(in
ModelCDRH3
)
sim_origin()
(in
RigidChunkCM
)
sd_range()
(in
SampleStrategyData
)
set_perturbable()
(in
PerturbBundleOptions
)
sim_selector()
(in
RigidChunkCM
)
sdev()
(in
BigBinConstraint
)
set_perturbation_magnitude()
(in
PerturbBundleOptions
)
SimAnnealerBase
(in
rosetta.core.pack.annealer._core_pack_annealer_
)
sdf
(in
rosetta.core.chemical
)
set_perturbation_type()
(in
PerturbBundleOptions
)
SimAnnealerBaseAP
(in
rosetta.core.pack.annealer._core_pack_annealer_
)
sdf_type()
(in
MolFileIOBond
)
set_perturbed_state()
(in
FASTERNode
)
SimAnnealerBaseCAP
(in
rosetta.core.pack.annealer._core_pack_annealer_
)
SDFParser
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
set_perturber()
(in
KinematicMover
)
SIMANNEALING
(in
rosetta.basic
)
SDFParserAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
set_perturber_bin()
(in
GeneralizedKIC
)
SIMANNEALING
(in
ProfTag
)
SDFParserCAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
set_perturber_effect()
(in
GeneralizedKIC
)
SIMANNEALING
(in
rosetta.basic._basic_
)
sealed_symmetric_fold_tree()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
set_perturber_effect()
(in
GeneralizedKICperturber
)
simple_calculators
(in
rosetta.core.pose.metrics
)
search_random_poses()
(in
PlaidFingerprint
)
set_perturber_iterations()
(in
GeneralizedKIC
)
simple_filters
(in
rosetta.protocols
)
search_x()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_perturber_must_switch_bins()
(in
GeneralizedKIC
)
simple_fold_tree()
(in
rosetta.protocols.antibody._protocols_antibody_
)
SearchPattern
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_pH()
(in
pHEnergy
)
simple_fold_tree()
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
SearchPatternAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phi()
(in
Pose
)
simple_ft()
(in
SetAtomTree
)
SearchPatternCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phi()
(in
RotData
)
simple_mapping_from_file()
(in
rosetta.core.sequence._core_sequence_
)
SearchPatternExpansion
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phi()
(in
OopDPuckMinusMover
)
simple_movers
(in
rosetta.protocols.grafting
)
SearchPatternExpansionAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phi()
(in
OopDPuckPlusMover
)
simple_moves
(in
rosetta.protocols
)
SearchPatternExpansionCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phi()
(in
OopMover
)
simple_numeric_deriv_check()
(in
rosetta.core.optimization._core_optimization_
)
SearchPatternRotSetOp
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phi()
(in
OopPuckMinusMover
)
simple_one_loop_fold_tree()
(in
rosetta.protocols.antibody._protocols_antibody_
)
SearchPatternRotSetOpAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phi()
(in
OopPuckPlusMover
)
simple_one_loop_fold_tree()
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
SearchPatternRotSetOpCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phosphate()
(in
AllowInsert
)
SIMPLE_POSE_SELECTION
(in
rosetta.protocols.stepwise.screener
)
SearchPatternTransform
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phosphate_domain()
(in
AllowInsert
)
SIMPLE_POSE_SELECTION
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
SearchPatternTransformAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_phosphate_move_list()
(in
MultiPhosphateSampler
)
SIMPLE_POSE_SELECTION
(in
StepWiseScreenerType
)
SearchPatternTransformCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_physical_pose_clash_dist_cutoff()
(in
RNA_VDW_BinChecker
)
SIMPLE_RMSD
(in
rosetta.protocols.stepwise.screener
)
Searchpoints()
(in
CartesianSearchPattern
)
set_picked_positions()
(in
FragmentPicker
)
SIMPLE_RMSD
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
Searchpoints()
(in
ComposeSearchPatterns
)
set_picking_rounds()
(in
AddCDRProfileSetsOperation
)
SIMPLE_RMSD
(in
StepWiseScreenerType
)
Searchpoints()
(in
ConstPattern
)
set_picking_rounds()
(in
AddCDRProfilesOperation
)
simple_rmsd_cutoff_relax()
(in
RNA_DeNovoProtocol
)
Searchpoints()
(in
LSMSearchPattern
)
set_picking_rounds()
(in
MutationSetDesignOperation
)
simple_rmsd_cutoff_relax()
(in
RNA_Relaxer
)
Searchpoints()
(in
PartitionedSearchPattern
)
set_picking_rounds()
(in
ResidueProbDesignOperation
)
simple_tree()
(in
FoldTree
)
Searchpoints()
(in
RotationSearchPattern
)
set_piece()
(in
AnchoredGraftMover
)
simple_visualize_fold_tree()
(in
rosetta.core.kinematics._core_kinematics_
)
Searchpoints()
(in
SICPatternAtTransform
)
set_piece()
(in
CCDEndsGraftMover
)
simple_visualize_fold_tree_and_movemap()
(in
rosetta.core.kinematics._core_kinematics_
)
Searchpoints()
(in
SearchPattern
)
set_piece()
(in
GraftMoverBase
)
simple_visualize_fold_tree_and_movemap_bb_chi()
(in
rosetta.core.kinematics._core_kinematics_
)
Searchpoints()
(in
SearchPatternExpansion
)
set_pivot_atoms()
(in
BackrubMover
)
SimpleDerivCheckResult
(in
rosetta.core.optimization._core_optimization_
)
Searchpoints()
(in
SearchPatternTransform
)
set_pivot_atoms()
(in
BackrubProtocol
)
SimpleDerivCheckResultAP
(in
rosetta.core.optimization._core_optimization_
)
Searchpoints()
(in
SphericalRotationSearchPattern
)
set_pivot_atoms()
(in
GeneralizedKIC
)
SimpleDerivCheckResultCAP
(in
rosetta.core.optimization._core_optimization_
)
Searchpoints()
(in
SurfaceSearchPattern
)
set_pivot_picker()
(in
BalancedKicMover
)
SimpleEdge
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
Searchpoints()
(in
TestPattern
)
set_pivot_picker()
(in
KicMover
)
SimpleEdgeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
sec_str()
(in
TMalign
)
set_pivot_residues()
(in
BackrubMover
)
SimpleEdgeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
secant()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
set_pivot_residues()
(in
BackrubProtocol
)
SimpleExpressionCreator
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
secant_interpolation()
(in
LineMinimizationAlgorithm
)
set_pivot_residues()
(in
BackrubSidechainMover
)
SimpleExpressionCreatorAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
SecMatchEvaluatorFactory
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_pivots()
(in
KinematicMover
)
SimpleExpressionCreatorCAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
SecMatchEvaluatorFactoryAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_placeholder()
(in
GenBornPoseInfo
)
SimpleInteractionGraph
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
SecMatchEvaluatorFactoryCAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_plaintext()
(in
GDB
)
SimpleInteractionGraphAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
SecMatchResiduePairEvaluator
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_point()
(in
HomogeneousTransform_T_double_T
)
SimpleInteractionGraphCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
SecMatchResiduePairEvaluatorAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_polar_charge_cutoff()
(in
SasaCalc
)
SimpleInterpolator
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
SecMatchResiduePairEvaluatorCAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_polymeric_connection()
(in
Conformation
)
SimpleInterpolatorAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
second
(in
pair_Real_Real
)
set_polymeric_connection()
(in
ProtectedConformation
)
SimpleInterpolatorCAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
second
(in
pair_Real_string
)
set_pool_name()
(in
FragmentCandidate
)
SIMPLEINTGRAPH
(in
rosetta.basic
)
second
(in
pair_SSize_SSize
)
set_poolrmsd()
(in
CanonicalSamplingMover
)
SIMPLEINTGRAPH
(in
ProfTag
)
second
(in
pair_SSize_string
)
set_population_weight()
(in
ClusterBase
)
SIMPLEINTGRAPH
(in
rosetta.basic._basic_
)
second
(in
pair_Size_Real
)
set_pos()
(in
NonContinuousFrame
)
SimpleNode
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
second
(in
pair_Size_Size
)
set_pos_in_node_edgevector()
(in
EdgeBase
)
SimpleNodeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
second
(in
pair_Size_SymDof
)
set_pos_in_owners_list()
(in
Edge
)
SimpleNodeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
second
(in
pair_Size_string
)
set_pos_in_owners_list()
(in
EdgeBase
)
SimplePDB
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
second
(in
pair_char_pair_Size_Size
)
set_pos_list()
(in
IdealizeMover
)
SimplePDB_Atom
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
second
(in
pair_int_int
)
set_pose()
(in
OnTheFlyInteractionGraph
)
SimplePDB_AtomAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
second
(in
pair_int_string
)
set_pose()
(in
SymmOnTheFlyInteractionGraph
)
SimplePDB_AtomCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
second
(in
pair_string_Real
)
set_pose()
(in
OTFFlexbbInteractionGraph
)
SimplePDBAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
second
(in
pair_string_SSize
)
set_pose()
(in
EntityCorrespondence
)
SimplePDBCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
second
(in
pair_string_Size
)
set_pose_after_closure()
(in
BaseTabooPerturber
)
SimpleScoringScheme
(in
rosetta.core.sequence._core_sequence_
)
second
(in
pair_string_int
)
set_pose_after_closure()
(in
KinematicPerturber
)
SimpleScoringSchemeAP
(in
rosetta.core.sequence._core_sequence_
)
second
(in
pair_string_string
)
set_pose_after_closure()
(in
NeighborDependentTorsionSamplingKinematicPerturber
)
SimpleScoringSchemeCAP
(in
rosetta.core.sequence._core_sequence_
)
second()
(in
Hit
)
set_pose_after_closure()
(in
TorsionRestrictedKinematicPerturber
)
SimpleSequenceCreator
(in
rosetta.core.sequence._core_sequence_
)
second()
(in
downstream_hit
)
set_pose_after_closure()
(in
TorsionSamplingKinematicPerturber
)
SimpleSequenceCreatorAP
(in
rosetta.core.sequence._core_sequence_
)
secondary_shifts()
(in
VallResidue
)
set_pose_after_closure()
(in
TorsionSweepingKinematicPerturber
)
SimpleSequenceCreatorCAP
(in
rosetta.core.sequence._core_sequence_
)
SECONDARY_STRUCTURE_ENERGY
(in
rosetta.basic
)
set_pose_after_closure()
(in
VicinitySamplingKinematicPerturber
)
simplesequencedata
(in
SharedSilentDataType
)
SECONDARY_STRUCTURE_ENERGY
(in
ProfTag
)
set_pose_and_scorefxn_for_edens_scoring()
(in
rosetta.protocols.electron_density._protocols_electron_density_
)
SimpleSequenceData
(in
rosetta.core.io.silent._core_io_silent_
)
SECONDARY_STRUCTURE_ENERGY
(in
rosetta.basic._basic_
)
set_pose_and_task()
(in
PackDaemon
)
simplesequencedata
(in
rosetta.core.io.silent._core_io_silent_
)
SECONDARY_STRUCTURE_HSPAIR_ENERGY
(in
rosetta.basic
)
set_pose_from_broker()
(in
FoldandDockClaimer
)
simplesequencedata
(in
rosetta.core.io.silent
)
SECONDARY_STRUCTURE_HSPAIR_ENERGY
(in
ProfTag
)
set_pose_from_broker()
(in
MembraneTopologyClaimer
)
SimpleSequenceDataAP
(in
rosetta.core.io.silent._core_io_silent_
)
SECONDARY_STRUCTURE_HSPAIR_ENERGY
(in
rosetta.basic._basic_
)
set_pose_from_broker()
(in
TopologyClaimer
)
SimpleSequenceDataCAP
(in
rosetta.core.io.silent._core_io_silent_
)
SECONDARY_STRUCTURE_SHEETS_FROM_DIMERS_ENERGY
(in
rosetta.basic
)
set_pose_list()
(in
StepWiseConnectionSampler
)
SimpleToken
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
SECONDARY_STRUCTURE_SHEETS_FROM_DIMERS_ENERGY
(in
ProfTag
)
set_pose_list()
(in
StepWiseClusterer
)
SimpleTokenAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
SECONDARY_STRUCTURE_SHEETS_FROM_DIMERS_ENERGY
(in
rosetta.basic._basic_
)
set_pose_no_initialize()
(in
SimpleInteractionGraph
)
SimpleTokenCAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
SECONDARY_STRUCTURE_SSPAIR_ENERGY
(in
rosetta.basic
)
set_pose_tag()
(in
CombinePoseMover
)
simplifyWhiteSpace()
(in
rosetta.protocols.sparta._protocols_sparta_
)
SECONDARY_STRUCTURE_SSPAIR_ENERGY
(in
ProfTag
)
set_poses()
(in
VectorPoseMover
)
simulate_mpi()
(in
SimulateMPI
)
SECONDARY_STRUCTURE_SSPAIR_ENERGY
(in
rosetta.basic._basic_
)
set_position()
(in
RNA_Datum
)
simulate_mpi_message_type
(in
rosetta.utility._utility_
)
secondary_structure_weights()
(in
EnergyMethodOptions
)
set_position()
(in
RNA_Reactivity
)
SimulatedTempering
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
SecondaryIdentity
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_position()
(in
PNatAAOptEPositionData
)
SimulatedTempering
(in
rosetta.protocols.moves._protocols_moves_
)
SecondaryIdentityAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_position_for_missing_res()
(in
EnzdesCstParamCache
)
SimulatedTemperingAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
SecondaryIdentityCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_position_for_missing_res_in_parameter_block()
(in
EnzConstraintIO
)
SimulatedTemperingAP
(in
rosetta.protocols.moves._protocols_moves_
)
SecondaryMatcherToDownstreamResidue
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_position_from_index()
(in
LexicographicalIterator
)
SimulatedTemperingCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
SecondaryMatcherToDownstreamResidueAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_position_in_pose()
(in
EnzCstTemplateResCache
)
SimulatedTemperingCAP
(in
rosetta.protocols.moves._protocols_moves_
)
SecondaryMatcherToDownstreamResidueCAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_positions()
(in
ScoreCutoffFilter
)
SimulatedTemperingCreator
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
SecondaryMatcherToUpstreamResidue
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_pr_idx()
(in
MultiProbePerSphereAccumulator
)
SimulatedTemperingCreatorAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
SecondaryMatcherToUpstreamResidueAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_pr_idx()
(in
MultiProbePoseAccumulator
)
SimulatedTemperingCreatorCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
SecondaryMatcherToUpstreamResidueCAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_pre_ligand_atom_id()
(in
MetalSiteResidue
)
SimulateMPI
(in
rosetta.utility._utility_
)
SecondaryMatchUpstreamResProcessor
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_pre_pre_ligand_atom_id()
(in
MetalSiteResidue
)
SimulateMPIAP
(in
rosetta.utility._utility_
)
SecondaryMatchUpstreamResProcessorAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_preapply()
(in
GenericMonteCarloMover
)
SimulateMPICAP
(in
rosetta.utility._utility_
)
SecondaryMatchUpstreamResProcessorCAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
set_precision()
(in
FragmentScoreManager
)
SimulateMPIData
(in
rosetta.utility._utility_
)
SecondarySimilarity
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_precision()
(in
AtomTreeDiffJobOutputter
)
SimulateMPIDataAP
(in
rosetta.utility._utility_
)
SecondarySimilarityAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_precision()
(in
AtomTreeDiffJobDistributor
)
SimulateMPIDataCAP
(in
rosetta.utility._utility_
)
SecondarySimilarityCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_precomputed_library_mover()
(in
StepWiseModeler
)
SimulateMPIMessage
(in
rosetta.utility._utility_
)
SecondaryStructure
(in
rosetta.core.fragment._core_fragment_
)
set_predicted_report_to_db()
(in
RRReporterSQLite
)
SimulateMPIMessageAP
(in
rosetta.utility._utility_
)
SecondaryStructureAP
(in
rosetta.core.fragment._core_fragment_
)
set_prefix()
(in
PDBWriter
)
SimulateMPIMessageCAP
(in
rosetta.utility._utility_
)
SecondaryStructureCAP
(in
rosetta.core.fragment._core_fragment_
)
set_premin()
(in
MDBase
)
sin_cos_tolerance()
(in
NumericTraits_T_double_T
)
SecondaryStructureCountFilter
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preminimize()
(in
StepWiseMonteCarloOptions
)
sin_cos_tolerance()
(in
NumericTraits_T_float_T
)
SecondaryStructureCountFilterAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_prepack()
(in
StepWiseProteinModelerOptions
)
sin_cos_tolerance()
(in
NumericTraits_T_long_double_T
)
SecondaryStructureCountFilterCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_prepack_only()
(in
DockTaskFactory
)
SINFXN()
(in
rosetta.numeric.crick_equations._numeric_crick_equations_
)
SecondaryStructureCountFilterCreator
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_presample_added_residue()
(in
AddMover
)
single_beta_sample()
(in
EllipsoidalRandomizationMover
)
SecondaryStructureCountFilterCreatorAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_presample_by_swa()
(in
AddMover
)
single_ligand_motif_from_stream()
(in
rosetta.protocols.motifs._protocols_motifs_
)
SecondaryStructureCountFilterCreatorCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_prescoring_filter()
(in
BackboneGridSampler
)
single_motif_from_filename()
(in
rosetta.protocols.motifs._protocols_motifs_
)
SecondaryStructureEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_prescoring_mover()
(in
BackboneGridSampler
)
single_motif_from_stream()
(in
rosetta.protocols.motifs._protocols_motifs_
)
SecondaryStructureEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_preselection_filter()
(in
BundleGridSampler
)
single_residue_from_stream()
(in
rosetta.protocols.motifs._protocols_motifs_
)
SecondaryStructureEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_preselection_mover()
(in
BundleGridSampler
)
single_substitution()
(in
FilterScanFilter
)
SecondaryStructureEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_preserve_atom_coords()
(in
MutateResidue
)
SingleBond
(in
rosetta
)
SecondaryStructureEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_preserve_crystinfo()
(in
FileDataOptions
)
SingleBond
(in
rosetta.core.chemical
)
SecondaryStructureEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_preserve_detailed_balance()
(in
BackrubMover
)
SingleBond
(in
BondName
)
SecondaryStructureFilter
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
BackrubSidechainMover
)
SingleBond
(in
rosetta.core.chemical._core_chemical_
)
SecondaryStructureFilterAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
ThermodynamicMover
)
SingleBondOrder
(in
rosetta
)
SecondaryStructureFilterCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
BalancedKicMover
)
SingleBondOrder
(in
rosetta.core.chemical
)
SecondaryStructureFilterCreator
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDeterministicSpinMover
)
SingleBondOrder
(in
BondOrder
)
SecondaryStructureFilterCreatorAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDofPerturbMover
)
SingleBondOrder
(in
rosetta.core.chemical._core_chemical_
)
SecondaryStructureFilterCreatorCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDofRandomTransMover
)
SingleDownstreamResidueWriter
(in
rosetta.protocols.match.output._protocols_match_output_
)
SecondaryStructureHasResidueFilter
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDofRandomizeMover
)
SingleDownstreamResidueWriterAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
SecondaryStructureHasResidueFilterAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDofSeqPerturbMover
)
SingleDownstreamResidueWriterCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
SecondaryStructureHasResidueFilterCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDofSeqRandomizeMover
)
SingleFileBuffer
(in
rosetta.protocols.jd2._protocols_jd2_
)
SecondaryStructureHasResidueFilterCreator
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDofSeqTransMover
)
SingleFileBufferAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
SecondaryStructureHasResidueFilterCreatorAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyDofTransMover
)
SingleFileBufferCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
SecondaryStructureHasResidueFilterCreatorCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
set_preserve_detailed_balance()
(in
RigidBodyMover
)
SingleLigandRotamerLibrary
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureMPM
(in
rosetta.protocols.match._protocols_match_
)
set_preserve_detailed_balance()
(in
RigidBodyPerturbMover
)
SingleLigandRotamerLibraryAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureMPMAP
(in
rosetta.protocols.match._protocols_match_
)
set_preserve_detailed_balance()
(in
RigidBodyPerturbNoCenterMover
)
SingleLigandRotamerLibraryCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureMPMCAP
(in
rosetta.protocols.match._protocols_match_
)
set_preserve_detailed_balance()
(in
RigidBodyPerturbRandomJumpMover
)
SingleLinkClusterer
(in
rosetta.numeric._numeric_
)
SecondaryStructurePool
(in
rosetta.protocols.frag_picker.quota._protocols_frag_picker_quota_
)
set_preserve_detailed_balance()
(in
RigidBodyRandomizeMover
)
SingleLinkClustererAP
(in
rosetta.numeric._numeric_
)
SecondaryStructurePoolAP
(in
rosetta.protocols.frag_picker.quota._protocols_frag_picker_quota_
)
set_preserve_detailed_balance()
(in
RigidBodySpinMover
)
SingleLinkClustererCAP
(in
rosetta.numeric._numeric_
)
SecondaryStructurePoolCAP
(in
rosetta.protocols.frag_picker.quota._protocols_frag_picker_quota_
)
set_preserve_detailed_balance()
(in
RigidBodyTransMover
)
SingleMotif
(in
rosetta.protocols.motifs._protocols_motifs_
)
SecondaryStructurePotential
(in
rosetta.core.scoring._core_scoring_
)
set_preserve_detailed_balance()
(in
UniformRigidBodyMover
)
SingleMotifAP
(in
rosetta.protocols.motifs._protocols_motifs_
)
SecondaryStructurePotentialAP
(in
rosetta.core.scoring._core_scoring_
)
set_preserve_detailed_balance()
(in
UniformSphereTransMover
)
SingleMotifCAP
(in
rosetta.protocols.motifs._protocols_motifs_
)
SecondaryStructurePotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
set_preserve_detailed_balance()
(in
BBConRotMover
)
SingleResidueCenrotLibrary
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
SecondaryStructureSegment
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
BBG8T3AMover
)
SingleResidueCenrotLibraryAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
SecondaryStructureSegmentAP
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
BBGaussianMover
)
SingleResidueCenrotLibraryCAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
SecondaryStructureSegmentCAP
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
BackboneMover
)
SingleResidueDunbrackLibrary
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureSegmentFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
ShearMover
)
SingleResidueDunbrackLibraryAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureSegmentFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
SmallMover
)
SingleResidueDunbrackLibraryCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureSegmentFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
JumpRotamerSidechainMover
)
SingleResidueFragData
(in
rosetta.core.fragment._core_fragment_
)
SecondaryStructureSegmentFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
PerturbChiSidechainMover
)
SingleResidueFragDataAP
(in
rosetta.core.fragment._core_fragment_
)
SecondaryStructureSegmentFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
PerturbRotamerSidechainMover
)
SingleResidueFragDataCAP
(in
rosetta.core.fragment._core_fragment_
)
SecondaryStructureSegmentFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_preserve_detailed_balance()
(in
SidechainMCMover
)
SingleResidueInvrotTarget
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
SecondaryStructureSelector
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
set_preserve_detailed_balance()
(in
SidechainMover
)
SingleResidueInvrotTargetAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
SecondaryStructureSelectorAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
set_preserve_detailed_balance()
(in
SidechainMoverBase
)
SingleResidueInvrotTargetCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
SecondaryStructureSelectorCAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
set_preserve_header()
(in
FileDataOptions
)
SingleResidueMultifunc
(in
rosetta.core.optimization._core_optimization_
)
SecondaryStructureSelectorCreator
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
set_preserve_whole_input_tag()
(in
BasicJob
)
SingleResidueMultifuncAP
(in
rosetta.core.optimization._core_optimization_
)
SecondaryStructureSelectorCreatorAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
set_previous_mover()
(in
MultiplePoseMover
)
SingleResidueMultifuncCAP
(in
rosetta.core.optimization._core_optimization_
)
SecondaryStructureSelectorCreatorCAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
set_primary_strategy()
(in
AddCDRProfilesOperation
)
SingleResiduePeptoidLibrary
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureType
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
set_prob()
(in
DunbrackRotamerSampleData
)
SingleResiduePeptoidLibraryAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureWeights
(in
rosetta.core.scoring._core_scoring_
)
set_prob()
(in
CentroidRotamerSampleData
)
SingleResiduePeptoidLibraryCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureWeightsAP
(in
rosetta.core.scoring._core_scoring_
)
set_prob_random_pert_current()
(in
BackrubSidechainMover
)
SingleResidueRotamerLibrary
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
SecondaryStructureWeightsCAP
(in
rosetta.core.scoring._core_scoring_
)
set_prob_random_pert_current()
(in
SidechainMover
)
SingleResidueRotamerLibraryAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
seconds()
(in
ExpiryFilter
)
set_prob_uniform()
(in
BackrubSidechainMover
)
SingleResidueRotamerLibraryCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
secstruct()
(in
Conformation
)
set_prob_uniform()
(in
SidechainMover
)
SingleResidueTorsionFragmentLibrary
(in
rosetta.protocols.frags._protocols_frags_
)
secstruct()
(in
BBTorsionAndAnglesSRFD
)
set_prob_withinrot()
(in
BackrubSidechainMover
)
SingleResidueTorsionFragmentLibraryAP
(in
rosetta.protocols.frags._protocols_frags_
)
secstruct()
(in
BBTorsionSRFD
)
set_prob_withinrot()
(in
SidechainMover
)
SingleResidueTorsionFragmentLibraryCAP
(in
rosetta.protocols.frags._protocols_frags_
)
secstruct()
(in
DownJumpSRFD
)
set_probability()
(in
RotData
)
SingleStructureData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
secstruct()
(in
FragData
)
set_probability_data_cutoff()
(in
AntibodySeqDesignTFCreator
)
SingleStructureDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
secstruct()
(in
IndependentBBTorsionSRFD
)
set_probe_radius()
(in
SasaCalc
)
SingleStructureDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
secstruct()
(in
SecondaryStructure
)
set_probe_radius()
(in
SasaMethod
)
SingletonBase_T_basic_datacache_WriteableCacheableDataFactory_T
(in
rosetta.basic.datacache._basic_datacache_
)
secstruct()
(in
SecstructSRFD
)
set_proc_id()
(in
BaseJobDistributor
)
SingletonBase_T_basic_datacache_WriteableCacheableDataFactory_TAP
(in
rosetta.basic.datacache._basic_datacache_
)
secstruct()
(in
SingleResidueFragData
)
set_ProCorrection_values()
(in
OnTheFlyEdge
)
SingletonBase_T_basic_datacache_WriteableCacheableDataFactory_TCAP
(in
rosetta.basic.datacache._basic_datacache_
)
secstruct()
(in
UpJumpSRFD
)
set_ProCorrection_values()
(in
OTFFlexbbEdge
)
SingletonBase_T_basic_message_listening_MessageListenerFactory_T
(in
rosetta.basic.message_listening._basic_message_listening_
)
secstruct()
(in
DecoyStruct
)
set_ProCorrection_values_for_edge()
(in
OnTheFlyInteractionGraph
)
SingletonBase_T_basic_message_listening_MessageListenerFactory_TAP
(in
rosetta.basic.message_listening._basic_message_listening_
)
secstruct()
(in
BinarySilentStruct
)
set_ProCorrection_values_for_edge()
(in
OTFFlexbbInteractionGraph
)
SingletonBase_T_basic_message_listening_MessageListenerFactory_TCAP
(in
rosetta.basic.message_listening._basic_message_listening_
)
secstruct()
(in
RNA_SilentStruct
)
set_profile()
(in
FavorSequenceProfile
)
SingletonBase_T_basic_resource_manager_FallbackConfigurationFactory_T
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
Pose
)
set_profile_wgt()
(in
SequenceProfileMover
)
SingletonBase_T_basic_resource_manager_FallbackConfigurationFactory_TAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
PoseBalls
)
set_property()
(in
AtomType
)
SingletonBase_T_basic_resource_manager_FallbackConfigurationFactory_TCAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
FullAtomRNA_Fragments
)
set_property()
(in
ResidueProperties
)
SingletonBase_T_basic_resource_manager_ResourceLoaderFactory_T
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
HSSTripletFilter
)
set_property()
(in
ResidueSelector
)
SingletonBase_T_basic_resource_manager_ResourceLoaderFactory_TAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
HelixPairingFilter
)
set_property()
(in
GasteigerAtomTypeData
)
SingletonBase_T_basic_resource_manager_ResourceLoaderFactory_TCAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
SS_Info2
)
set_property()
(in
OrbitalType
)
SingletonBase_T_basic_resource_manager_ResourceLocatorFactory_T
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
RMSVallData
)
set_protein_esp_to_zero()
(in
ElectrostaticpotentialGrid
)
SingletonBase_T_basic_resource_manager_ResourceLocatorFactory_TAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
VallData
)
set_protein_prepack()
(in
StepWiseMonteCarloOptions
)
SingletonBase_T_basic_resource_manager_ResourceLocatorFactory_TCAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
secstruct()
(in
BluePrint
)
set_protocol()
(in
DockingHighResLegacy
)
SingletonBase_T_basic_resource_manager_ResourceManager_T
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
SecStructGen
(in
rosetta.core.fragment.picking_old.vall.gen._core_fragment_picking_old_vall_gen_
)
set_protocol()
(in
SymDockingHiRes
)
SingletonBase_T_basic_resource_manager_ResourceManager_T
(in
rosetta.protocols.jd2._protocols_jd2_
)
SecStructGenAP
(in
rosetta.core.fragment.picking_old.vall.gen._core_fragment_picking_old_vall_gen_
)
set_protocol_and_batch_id()
(in
rosetta.protocols.features._protocols_features_
)
SingletonBase_T_basic_resource_manager_ResourceManager_TAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
SecStructGenCAP
(in
rosetta.core.fragment.picking_old.vall.gen._core_fragment_picking_old_vall_gen_
)
set_protocol_info()
(in
RRReporter
)
SingletonBase_T_basic_resource_manager_ResourceManager_TAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
SecstructSRFD
(in
rosetta.core.fragment._core_fragment_
)
set_protocol_info()
(in
RRReporterHuman
)
SingletonBase_T_basic_resource_manager_ResourceManager_TCAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
SecstructSRFDAP
(in
rosetta.core.fragment._core_fragment_
)
set_protocol_info()
(in
RRReporterSQLite
)
SingletonBase_T_basic_resource_manager_ResourceManager_TCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
SecstructSRFDCAP
(in
rosetta.core.fragment._core_fragment_
)
set_protocol_info()
(in
RRReporterSimple
)
SingletonBase_T_basic_resource_manager_ResourceManagerFactory_T
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
section_index()
(in
VallResidue
)
set_proton_chi()
(in
ResidueType
)
SingletonBase_T_basic_resource_manager_ResourceManagerFactory_TAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
section_index()
(in
VallResidue
)
set_protonated_H1_adenosine_list()
(in
StepWiseWorkingParametersSetup
)
SingletonBase_T_basic_resource_manager_ResourceManagerFactory_TCAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
see_edge_or_core_or_loop_or_short_edge()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_protonated_H1_adenosine_list()
(in
StepWiseWorkingParameters
)
SingletonBase_T_basic_resource_manager_ResourceOptionsFactory_T
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
see_whether_sheet_is_antiparallel()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_pseudobonds_to_residue()
(in
Residue
)
SingletonBase_T_basic_resource_manager_ResourceOptionsFactory_TAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
see_whether_sheets_can_be_combined()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_psi()
(in
Pose
)
SingletonBase_T_basic_resource_manager_ResourceOptionsFactory_TCAP
(in
rosetta.basic.resource_manager._basic_resource_manager_
)
see_whether_this_sw_has_SS_bond()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_psi()
(in
RotData
)
SingletonBase_T_basic_sampling_orientations_QuaternionGridManager_T
(in
rosetta.basic.sampling.orientations._basic_sampling_orientations_
)
seeded_abinitio
(in
rosetta.protocols
)
set_psi()
(in
OopDPuckMinusMover
)
SingletonBase_T_basic_sampling_orientations_QuaternionGridManager_TAP
(in
rosetta.basic.sampling.orientations._basic_sampling_orientations_
)
SeedFoldTree
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_psi()
(in
OopDPuckPlusMover
)
SingletonBase_T_basic_sampling_orientations_QuaternionGridManager_TCAP
(in
rosetta.basic.sampling.orientations._basic_sampling_orientations_
)
SeedFoldTreeAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_psi()
(in
OopMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.chemical._core_chemical_
)
SeedFoldTreeCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_psi()
(in
OopPuckMinusMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
SeedFoldTreeCreator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_psi()
(in
OopPuckPlusMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.chemical.orbitals._core_chemical_orbitals_
)
SeedFoldTreeCreatorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_pssm_probabilities()
(in
PSSMOptEPositionData
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
SeedFoldTreeCreatorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_pucker_flip_rate()
(in
RNA_MC_MultiSuite
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.conformation._core_conformation_
)
SeedSetupMover
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_pucker_flip_rate()
(in
RNA_MC_Suite
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
SeedSetupMoverAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_pucker_state()
(in
RNA_ChiStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
SeedSetupMoverCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_pucker_state()
(in
RNA_KIC_Sampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.fragment.picking_old.vall.eval._core_fragment_picking_old_vall_eval_
)
SeedSetupMoverCreator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_pucker_state()
(in
RNA_SugarStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
SeedSetupMoverCreatorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_pyexit_callback()
(in
rosetta.utility._utility_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
SeedSetupMoverCreatorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_PyExitCallBack()
(in
PyExitCallback
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.io.silent._core_io_silent_
)
segment()
(in
BackrubMover
)
set_query_profile()
(in
FragmentPicker
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
segment_id()
(in
BackrubMover
)
set_query_seq()
(in
FragmentPicker
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
segment_length()
(in
KinematicMover
)
set_quick_alignment()
(in
StepWiseRNA_Clusterer
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
SegmentHybridizer
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_quota_score()
(in
FragmentScoreMap
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.pack.task._core_pack_task_
)
SegmentHybridizerAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_r0()
(in
MakeBundleHelix
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
SegmentHybridizerCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_r0()
(in
BundleParameters
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.pose._core_pose_
)
SegmentHybridizerCreator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_r1()
(in
BundleParameters
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
SegmentHybridizerCreatorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_r_array()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring._core_scoring_
)
SegmentHybridizerCreatorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_r_inv_array()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.bin_transitions._core_scoring_bin_transitions_
)
SegmentInsert
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_radial_disp_ranges()
(in
SymDofMoverSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
SegmentInsertAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_radial_disps()
(in
SymDofMoverSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.cryst._core_scoring_cryst_
)
SegmentInsertCAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_radii_set()
(in
SasaMethod
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.dna._core_scoring_dna_
)
SegmentInsertConnectionScheme
(in rosetta.protocols.forge.build)
set_radius()
(in
ClusterPhilStyle
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
SegmentRebuild
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_rama_check()
(in
KinematicMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
SegmentRebuildAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_rama_term_ramping()
(in
LoopProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
SegmentRebuildCAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_ramp_fa_rep()
(in
ShakeStructureMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.facts._core_scoring_facts_
)
segments()
(in
SpecialSegmentsObserver
)
set_ramp_rama()
(in
CentroidRelax
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
SegmentSwap
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_ramp_vdw()
(in
CentroidRelax
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
SegmentSwapAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_rand()
(in
GeneticAlgorithm
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.membrane._core_scoring_membrane_
)
SegmentSwapCAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
set_rand()
(in
GeneticAlgorithmBase
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
select()
(in
ResidueSelector
)
set_random()
(in
Scheduler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.methods.vall_lookback._core_scoring_methods_vall_lookback_
)
select_best_poses()
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_random()
(in
JumpStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
select_cav_balls()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_random()
(in
MC_Comb
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
select_epitope_residues()
(in
rosetta.protocols.antibody._protocols_antibody_
)
set_random()
(in
MC_OneTorsion
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
select_final_loop()
(in
FASelectSlidingWindowLoopClosure
)
set_random()
(in
NoOpStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
select_final_loop()
(in
SlidingWindowLoopClosure
)
set_random()
(in
StepWiseSamplerAny
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
select_final_loop()
(in
WidthFirstSlidingWindowLoopClosure
)
set_random()
(in
StepWiseSamplerBase
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
select_fragments()
(in
BestTotalScoreSelector
)
set_random()
(in
StepWiseSamplerComb
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
select_fragments()
(in
CompositeFragmentSelector
)
set_random()
(in
StepWiseSamplerOneTorsion
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.trie._core_scoring_trie_
)
select_fragments()
(in
CustomScoreSelector
)
set_random()
(in
StepWiseSamplerOneValue
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.scoring.vdwaals._core_scoring_vdwaals_'
)
select_fragments()
(in
DiversifyCrmsdByClustering
)
set_random()
(in
StepWiseSamplerOneValueComb
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.core.util._core_util_
)
select_fragments()
(in
DiversifyCrmsdSelector
)
set_random()
(in
StepWiseSamplerSized
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
select_fragments()
(in
DiversifyDihedralsSelector
)
set_random()
(in
StepWiseSamplerSizedAny
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
select_fragments()
(in
FragmentSelectingRule
)
set_random()
(in
StepWiseSamplerSizedComb
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.antibody._protocols_antibody_
)
select_fragments()
(in
QuotaSelector
)
set_random()
(in
CopyDofStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
select_interface_residues()
(in
rosetta.protocols.interface._protocols_interface_
)
set_random()
(in
ResidueAlternativeStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
select_jump()
(in
OrderedSequentialSymmetrySlider
)
set_random()
(in
ResidueAlternativeStepWiseSamplerComb
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.antibody.database._protocols_antibody_database_
)
select_jump()
(in
RandomSymmetrySlider
)
set_random()
(in
ResidueListStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
select_jump()
(in
SequentialSymmetrySlider
)
set_random()
(in
InputStreamStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.antibody.task_operations._protocols_antibody_task_operations_
)
select_jump()
(in
SymmetrySlider
)
set_random()
(in
ProteinBetaAntiParallelStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
select_loop_frags()
(in
rosetta.protocols.loops._protocols_loops_
)
set_random()
(in
ProteinFragmentStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.backrub._protocols_backrub_
)
select_loop_residues()
(in
rosetta.protocols.loops._protocols_loops_
)
set_random()
(in
ProteinMainChainStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
select_orient_atoms()
(in
ResidueType
)
set_random()
(in
RigidBodyStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
select_orient_atoms()
(in
Residue
)
set_random()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.cluster._protocols_cluster_
)
select_parts()
(in
RigidChunkCM
)
set_random()
(in
RigidBodyStepWiseSamplerWithResidueList
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
select_poses()
(in
PoseSelector
)
set_random()
(in
RNA_ChiStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.denovo_design.movers._protocols_denovo_design_movers_
)
select_random()
(in
JumpSelector
)
set_random()
(in
RNA_KIC_Sampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
select_random_move()
(in
StepWiseMoveSelector
)
set_random()
(in
RNA_KinematicCloser
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.dna._protocols_dna_
)
select_RBsegments()
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_random()
(in
RNA_MC_MultiSuite
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.docking._protocols_docking_
)
select_relevant_states()
(in
DynamicAggregateFunction
)
set_random()
(in
RNA_MC_Sugar
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.docking.membrane._protocols_docking_membrane_
)
select_relevant_states()
(in
MultistateAggregateFunction
)
set_random()
(in
RNA_MC_Suite
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.environment._protocols_environment_
)
select_residues()
(in
ResidueTypeSet
)
set_random()
(in
RNA_NucleosideStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
select_residues()
(in
SaveResfileToDiskFilter
)
set_random()
(in
RNA_SugarStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.enzdes._protocols_enzdes_'
)
select_rotamer()
(in
BoltzmannRotamerMover
)
set_random()
(in
RNA_SuiteStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.features._protocols_features_
)
select_rotamer_subset()
(in
PackDaemon
)
set_random_confomer()
(in
ConformerSwitchMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
select_score()
(in
EvaluatedArchive
)
set_random_mode()
(in
NormalModeRelaxMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
SelectByDeltaScoreOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_random_order_()
(in
IndependentLoopMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
SelectByDeltaScoreOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_random_sheets()
(in
FoldTreeHybridize
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
SelectByDeltaScoreOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize()
(in
RBSegmentRelax
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.forge.components._protocols_forge_components_
)
SelectByDeltaScoreOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize1()
(in
DockingInitialPerturbation
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
SelectByDeltaScoreOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize2()
(in
DockingInitialPerturbation
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.forge.remodel._protocols_forge_remodel_'
)
SelectByDeltaScoreOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize_input_sequence()
(in
AnchoredDesignMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
SelectByDensityFitOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize_missing_coords()
(in
FileDataOptions
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
SelectByDensityFitOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize_resnum()
(in
BoltzmannRotamerMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.generalized_kinematic_closure._protocols_generalized_kinematic_closure_
)
SelectByDensityFitOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize_resnum()
(in
CoupledMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.generalized_kinematic_closure.filter._protocols_generalized_kinematic_closure_filter_
)
SelectByDensityFitOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_randomize_resnum()
(in
ShortBackrubMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
SelectByDensityFitOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_range()
(in
FitSimpleHelix
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.generalized_kinematic_closure.selector._protocols_generalized_kinematic_closure_selector_
)
SelectByDensityFitOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_ranges_unmodifiable()
(in
MoveMap
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.grafting._protocols_grafting_
)
SelectBySASAOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rb_center()
(in
Jump
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.grafting.simple_movers._protocols_grafting_simple_movers_
)
SelectBySASAOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rb_constraints()
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
SelectBySASAOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rb_delta()
(in
Jump
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.helical_bundle.parameters._protocols_helical_bundle_parameters_
)
SelectBySASAOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rb_deltas()
(in
Jump
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.helix_capper._protocols_helix_capper_
)
SelectBySASAOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rb_min_post_graft()
(in
AntibodyDesignMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
SelectBySASAOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rcgs()
(in
BluePrintBDR
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
selected_boundary_residues()
(in
SelectResiduesByLayer
)
set_reactivity()
(in
RDAT
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.indexed_structure_store.filters._protocols_indexed_structure_store_filters_
)
selected_core_residues()
(in
SelectResiduesByLayer
)
set_reactivity_error()
(in
RDAT
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.interface._protocols_interface_
)
selected_resis()
(in
SaveResfileToDiskFilter
)
set_read_annotation()
(in
FragmentIO
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.jd2._protocols_jd2_
)
selected_resis_property()
(in
SaveResfileToDiskFilter
)
set_read_fold_tree()
(in
ImportPoseOptions
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
selected_surface_residues()
(in
SelectResiduesByLayer
)
set_read_link_records()
(in
PDB_DReaderOptions
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
SelectedResPredicate
(in
rosetta.core.scoring._core_scoring_
)
set_read_pdb_header()
(in
PDB_DReaderOptions
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.loop_build._protocols_loop_build_
)
SelectedResPredicateAP
(in
rosetta.core.scoring._core_scoring_
)
set_Real
(in
rosetta.utility._utility_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.loop_modeling._protocols_loop_modeling_
)
SelectedResPredicateCAP
(in
rosetta.core.scoring._core_scoring_
)
set_real_option()
(in
rosetta.basic._basic_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.loop_modeling.refiners._protocols_loop_modeling_refiners_
)
SelectGdtEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_real_option()
(in
rosetta.basic.options._basic_options_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
SelectGdtEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_real_vector_option()
(in
rosetta.basic.options._basic_options_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.loops.loop_mover._protocols_loops_loop_mover_
)
SelectGdtEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_reasonable_fold_tree()
(in
rosetta.core.import_pose._core_import_pose_
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
selection()
(in
RmsdFilter
)
set_rebuild_bulge_mode()
(in
StepWiseWorkingParametersSetup
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.match.output._protocols_match_output_
)
selection_low()
(in
BackboneGridSampler
)
set_rebuild_bulge_mode()
(in
StepWiseWorkingParameters
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.matdes._protocols_matdes_
)
selection_low()
(in
BundleGridSampler
)
set_rebuild_bulge_mode()
(in
StepWiseMonteCarloOptions
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.md._protocols_md_
)
SelectMaxsubEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_recent_history_size()
(in
LinearMemNode
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.membrane._protocols_membrane_
)
SelectMaxsubEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_recent_history_size()
(in
LinearMemoryInteractionGraph
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
SelectMaxsubEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_recent_history_size()
(in
SymmLinearMemNode
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
selector
(in
rosetta.protocols.generalized_kinematic_closure
)
set_recent_history_size()
(in
SymmLinearMemoryInteractionGraph
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.membrane.visualize._protocols_membrane_visualize_
)
selector()
(in
PatchCase
)
set_receptor_chain()
(in
FlexPepDockingFlags
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.moves._protocols_moves_
)
selector()
(in
OperateOnResidueSubset
)
set_reconstruct()
(in
WorkUnit_PartialAbinitio
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
selector()
(in
AbscriptLoopCloserCM
)
set_record_source()
(in
SilentFilePoseInputStream
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
selector()
(in
FragmentCM
)
set_record_source()
(in
SilentFileData
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.ncbb.oop._protocols_ncbb_oop_
)
selector()
(in
TorsionClaim
)
set_record_statistics()
(in
BackrubSidechainMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.neighbor._protocols_neighbor_
)
selector()
(in
XYZClaim
)
set_recover_low()
(in
GenericMonteCarloMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
Selector_AA
(in
rosetta.core.chemical._core_chemical_
)
set_recover_low()
(in
RationalMonteCarlo
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.outputter._protocols_outputter_
)
Selector_AAAP
(in
rosetta.core.chemical._core_chemical_
)
set_recover_low()
(in
StepWiseMonteCarloOptions
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.pockets._protocols_pockets_
)
Selector_AACAP
(in
rosetta.core.chemical._core_chemical_
)
set_recover_sidechains_filename()
(in
DockingProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
Selector_CMDFLAG
(in
rosetta.core.chemical._core_chemical_
)
set_recovery_threshold()
(in
RRComparer
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
Selector_CMDFLAGAP
(in
rosetta.core.chemical._core_chemical_
)
set_recovery_threshold()
(in
RRComparerAutomorphicRMSD
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
Selector_CMDFLAGCAP
(in
rosetta.core.chemical._core_chemical_
)
set_recovery_threshold()
(in
RRComparerChiDiff
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.relax._protocols_relax_
)
Selector_MATCH_VARIANTS
(in
rosetta.core.chemical._core_chemical_
)
set_recovery_threshold()
(in
RRComparerElecDensDiff
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.rigid._protocols_rigid_
)
Selector_MATCH_VARIANTSAP
(in
rosetta.core.chemical._core_chemical_
)
set_recovery_threshold()
(in
RRComparerRotBins
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
Selector_MATCH_VARIANTSCAP
(in
rosetta.core.chemical._core_chemical_
)
set_redesign_loop()
(in
LoopMover_Refine_Backrub
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.rpc._protocols_rpc_
)
Selector_NAME1
(in
rosetta.core.chemical._core_chemical_
)
set_redesign_loop()
(in
LoopMover_Refine_CCD
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
Selector_NAME1AP
(in
rosetta.core.chemical._core_chemical_
)
set_redesign_loop()
(in
LoopMover_Refine_KIC
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
Selector_NAME1CAP
(in
rosetta.core.chemical._core_chemical_
)
set_reference_atom()
(in
FitSimpleHelix
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.sic_dock.scores._protocols_sic_dock_scores_
)
Selector_NAME3
(in
rosetta.core.chemical._core_chemical_
)
set_reference_energy()
(in
SingleLigandRotamerLibrary
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
Selector_NAME3AP
(in
rosetta.core.chemical._core_chemical_
)
set_reference_pose()
(in
RestrictDesignToProteinDNAInterface
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
Selector_NAME3CAP
(in
rosetta.core.chemical._core_chemical_
)
set_reference_pose()
(in
InterfaceRecapitulationMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.simple_moves.chiral._protocols_simple_moves_chiral_
)
Selector_NO_VARIANTS
(in
rosetta.core.chemical._core_chemical_
)
set_reference_pose()
(in
SuperimposeMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
Selector_NO_VARIANTSAP
(in
rosetta.core.chemical._core_chemical_
)
set_reference_round_task_factory()
(in
GreenPacker
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
Selector_NO_VARIANTSCAP
(in
rosetta.core.chemical._core_chemical_
)
set_refine_CCD_off()
(in
AnchoredRefineMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.legacy.screener._protocols_stepwise_legacy_screener_'
)
Selector_PROPERTY
(in
rosetta.core.chemical._core_chemical_
)
set_refine_cycles()
(in
AnchoredRefineMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
Selector_PROPERTYAP
(in
rosetta.core.chemical._core_chemical_
)
set_refine_h3()
(in
AntibodyModelerProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
Selector_PROPERTYCAP
(in
rosetta.core.chemical._core_chemical_
)
set_refine_input_loop()
(in
RefineOneCDRLoopCentroid
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.modeler.protein.checker._protocols_stepwise_modeler_protein_checker_
)
selector_type
(in
rosetta.protocols.generalized_kinematic_closure.selector._protocols_generalized_kinematic_closure_selector_
)
set_refine_KIC_off()
(in
AnchoredRefineMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
Selector_UPPER_POSITION
(in
rosetta.core.chemical._core_chemical_
)
set_refine_mode()
(in
RefineOneCDRLoop
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.modeler.rna.checker._protocols_stepwise_modeler_rna_checker_
)
Selector_UPPER_POSITIONAP
(in
rosetta.core.chemical._core_chemical_
)
set_refine_only()
(in
AnchoredDesignMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.modeler.rna.o2prime._protocols_stepwise_modeler_rna_o2prime_
)
Selector_UPPER_POSITIONCAP
(in
rosetta.core.chemical._core_chemical_
)
set_refine_pose()
(in
RNA_DeNovoProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.sampler.copy_dofs._protocols_stepwise_sampler_copy_dofs_
)
Selector_VARIANT_TYPE
(in
rosetta.core.chemical._core_chemical_
)
set_refine_pose_list()
(in
RNA_DeNovoProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.sampler.rigid_body._protocols_stepwise_sampler_rigid_body_
)
Selector_VARIANT_TYPEAP
(in
rosetta.core.chemical._core_chemical_
)
set_refine_repack_cycles()
(in
AnchoredRefineMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
Selector_VARIANT_TYPECAP
(in
rosetta.core.chemical._core_chemical_
)
set_refine_temp()
(in
AnchoredRefineMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.symmetric_docking.membrane._protocols_symmetric_docking_membrane_
)
SelectRDC_Evaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_refine_type()
(in
AntibodyModelerProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
SelectRDC_EvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_refstruct()
(in
AtomCoordinateCstMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
SelectRDC_EvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_region()
(in
DisableAntibodyRegionOperation
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
SelectResiduesByLayer
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
set_region()
(in
FragQualCalculator
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
SelectResiduesByLayerAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
set_registry_shift()
(in
InsertChunkMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
SelectResiduesByLayerCAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
set_reinitialize_CCD_torsions()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.trajectory._protocols_trajectory_
)
SelectResiduesWithinChainOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_reinitialize_CCD_torsions()
(in
RNA_ChainClosureChecker
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
SelectResiduesWithinChainOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_relative()
(in
XYZClaim
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.vip._protocols_vip_
)
SelectResiduesWithinChainOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_relaxmode()
(in
NormalModeRelaxMover
)
SingletonBase_T_core_chemical_ChemicalManager_T
(in
rosetta.protocols.wum2._protocols_wum2_
)
SelectResiduesWithinChainOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_relaxtype()
(in
WorkUnit_MD
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.chemical._core_chemical_
)
SelectResiduesWithinChainOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_relaxtype()
(in
WorkUnit_Relax
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
SelectResiduesWithinChainOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_relevant_atom_ids()
(in
SameSequenceAndDSPositionGrouper
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.chemical.orbitals._core_chemical_orbitals_
)
SelectRmsdEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_relevant_residues()
(in
ReportToDB
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
SelectRmsdEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_relevant_residues_mode()
(in
FeaturesReporter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.conformation._core_conformation_
)
SelectRmsdEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_relevant_residues_mode()
(in
ReportToDB
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
semiexpl_water_hbgeom_score()
(in
SemiExplicitWaterUnsatisfiedPolarsCalculator
)
set_relevant_residues_task_factory()
(in
ReportToDB
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
SemiExplicitWaterUnsatisfiedPolarsCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_remember_unrecognized_res()
(in
FileDataOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.fragment.picking_old.vall.eval._core_fragment_picking_old_vall_eval_
)
SemiExplicitWaterUnsatisfiedPolarsCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_remember_unrecognized_water()
(in
FileDataOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
SemiExplicitWaterUnsatisfiedPolarsCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_remove_any_set_forced_cluster()
(in
CDRDihedralConstraintMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
send_char_to_node()
(in
SimulateMPI
)
set_remove_cterminus_variant()
(in
StepWiseProteinPoseSetup
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.io.silent._core_io_silent_
)
send_char_to_node()
(in
rosetta.utility._utility_
)
set_remove_nterminus_variant()
(in
StepWiseProteinPoseSetup
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
send_colors()
(in
PyMOLMover
)
set_rename_tags()
(in
StepWiseRNA_Clusterer
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
send_colors()
(in
PyMolMover
)
set_rename_tags()
(in
StepWiseLegacyClusterer
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
send_data_to_head_node()
(in
rosetta.basic.message_listening._basic_message_listening_
)
set_rename_tags()
(in
StepWiseLegacyClustererSilentBased
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.pack.task._core_pack_task_
)
send_double_to_node()
(in
SimulateMPI
)
set_rep_cutoff()
(in
SimulatedTempering
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
send_double_to_node()
(in
rosetta.utility._utility_
)
set_repack()
(in
DockingHighResLegacy
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.pose._core_pose_
)
send_doubles_to_node()
(in
SimulateMPI
)
set_repack()
(in
SymDockingHiRes
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
send_doubles_to_node()
(in
rosetta.utility._utility_
)
set_repack_list()
(in
GenBornPoseInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring._core_scoring_
)
send_energy()
(in
PyMOLMover
)
set_repack_period()
(in
RepackingRefiner
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.bin_transitions._core_scoring_bin_transitions_
)
send_energy()
(in
PyMolMover
)
set_repack_shell()
(in
PointMutationCalculator
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
send_foldtree()
(in
PyMOLMover
)
set_repack_shell()
(in
MatDesPointMutationCalculator
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.cryst._core_scoring_cryst_
)
send_hbonds()
(in
PyMOLMover
)
set_repeats()
(in
PerturbByBins
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.dna._core_scoring_dna_
)
send_integer_to_node()
(in
SimulateMPI
)
set_replacement_resid()
(in
PoseInserter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
send_integer_to_node()
(in
rosetta.utility._utility_
)
set_repldist_params_helix_sheet()
(in
NatbiasHelicesSheetPotential
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
send_integers_to_node()
(in
SimulateMPI
)
set_report_format()
(in
PeptideDeriverFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
send_integers_to_node()
(in
rosetta.utility._utility_
)
set_report_scorecomp()
(in
MDBase
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.facts._core_scoring_facts_
)
send_membrane_planes()
(in
PyMolMover
)
set_reporting()
(in
DockingProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
send_message()
(in
PySocketClient
)
set_reportstep()
(in
MDBase
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
send_movemap()
(in
PyMOLMover
)
set_repulsive_term_ramping()
(in
LoopProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.membrane._core_scoring_membrane_
)
send_point()
(in
PyMOLMover
)
set_require_mm_bend()
(in
BackrubMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
send_polars()
(in
PyMOLMover
)
set_require_mm_bend()
(in
BackrubSidechainMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.methods.vall_lookback._core_scoring_methods_vall_lookback_
)
send_RAW_Energies()
(in
PyMolMover
)
set_required_atoms()
(in
TargetRotamerCoords
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
send_spin_down_signal()
(in
MPIMultistateFitnessFunction
)
set_required_connections_for_residue()
(in
PackerNeighborGraphFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
send_ss()
(in
PyMOLMover
)
set_res1()
(in
WorkUnit_FragInsert
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
send_string_to_node()
(in
SimulateMPI
)
set_res1()
(in
WorkUnit_KicCloser
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
send_string_to_node()
(in
rosetta.utility._utility_
)
set_res1()
(in
WorkUnit_PartialAbinitio
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
send_structure()
(in
PyMOLMover
)
set_res1()
(in
WorkUnit_RamaPerturber
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
send_to_stdout()
(in
NumericalDerivCheckResult
)
set_res2()
(in
WorkUnit_FragInsert
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
sendMessage()
(in
UDPSocketClient
)
set_res2()
(in
WorkUnit_KicCloser
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.trie._core_scoring_trie_
)
sep_ss()
(in
HolesParams
)
set_res2()
(in
WorkUnit_PartialAbinitio
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.scoring.vdwaals._core_scoring_vdwaals_'
)
SeparateDnaFromNonDna
(in
rosetta.protocols.dna._protocols_dna_
)
set_res2()
(in
WorkUnit_RamaPerturber
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.core.util._core_util_
)
SeparateDnaFromNonDnaAP
(in
rosetta.protocols.dna._protocols_dna_
)
set_res_high()
(in
FiberDiffractionOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
SeparateDnaFromNonDnaCAP
(in
rosetta.protocols.dna._protocols_dna_
)
set_res_list()
(in
FullModelInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
SeparateDnaFromNonDnaCreator
(in
rosetta.protocols.dna._protocols_dna_
)
set_res_low()
(in
FiberDiffractionOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
SeparateDnaFromNonDnaCreatorAP
(in
rosetta.protocols.dna._protocols_dna_
)
set_res_name()
(in
MutateResidue
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
SeparateDnaFromNonDnaCreatorCAP
(in
rosetta.protocols.dna._protocols_dna_
)
set_rescore_only()
(in
StepWiseProteinMinimizer
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
SEPTANOSE
(in
rosetta
)
set_reserve_size()
(in
Pool_RMSD
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.antibody.database._protocols_antibody_database_
)
SEPTANOSE
(in
rosetta.core.chemical
)
set_reset_filters()
(in
CombinedFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
SEPTANOSE
(in
ResidueProperty
)
set_reset_filters()
(in
CompoundFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.antibody.task_operations._protocols_antibody_task_operations_
)
SEPTANOSE
(in
rosetta.core.chemical._core_chemical_
)
set_reset_mode()
(in
PeptideStubMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
seq()
(in
CompositeSequence
)
set_reset_mode()
(in
BundleGridSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.backrub._protocols_backrub_
)
seq1()
(in
DerivedSequenceMapping
)
set_reset_pose()
(in
MakeBundle
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
seq2()
(in
DerivedSequenceMapping
)
set_reset_pose()
(in
MakeBundleHelix
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
seq_design_basic
(in
SeqDesignStrategyEnum
)
set_resfile()
(in
DesignTask
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
seq_design_basic
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_resfile()
(in
SetupHotspotConstraintsLoopsMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
seq_design_basic
(in
rosetta.protocols.antibody.design
)
set_resfile_1()
(in
AnchorMoversData
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.denovo_design.movers._protocols_denovo_design_movers_
)
seq_design_conservative
(in
SeqDesignStrategyEnum
)
set_resfile_2()
(in
AnchorMoversData
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
seq_design_conservative
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_resid()
(in
RotamerSet
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.dna._protocols_dna_
)
seq_design_conservative
(in
rosetta.protocols.antibody.design
)
set_resid()
(in
CompoundFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.docking._protocols_docking_
)
seq_design_none
(in
SeqDesignStrategyEnum
)
set_resid()
(in
ResId
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.docking.membrane._protocols_docking_membrane_
)
seq_design_none
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_resid()
(in
ParsedProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.environment._protocols_environment_
)
seq_design_none
(in
rosetta.protocols.antibody.design
)
set_resid()
(in
AtomicContactFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
seq_design_profile_sets
(in
SeqDesignStrategyEnum
)
set_resid_2_connection_entry()
(in
RotamerTrieBase
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.enzdes._protocols_enzdes_'
)
seq_design_profile_sets
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_residue()
(in
Parameters
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.features._protocols_features_
)
seq_design_profile_sets
(in
rosetta.protocols.antibody.design
)
set_residue()
(in
FragData
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
seq_design_profile_sets_combined
(in
SeqDesignStrategyEnum
)
set_residue()
(in
BundleParameters
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
seq_design_profile_sets_combined
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_residue_base2_atoms()
(in
ResidueVicinityInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
seq_design_profile_sets_combined
(in
rosetta.protocols.antibody.design
)
set_residue_base_atoms()
(in
ResidueVicinityInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
seq_design_profiles
(in
SeqDesignStrategyEnum
)
set_residue_name()
(in
MakeBundleHelix
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.forge.components._protocols_forge_components_
)
seq_design_profiles
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_residue_name3()
(in
ResidueNameSelector
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
seq_design_profiles
(in
rosetta.protocols.antibody.design
)
set_residue_names()
(in
ResidueNameSelector
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.forge.remodel._protocols_forge_remodel_'
)
seq_design_strategy_to_enum()
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_residue_numbers()
(in
SilentStruct
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
seq_design_strategy_to_string()
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_residue_pair_xform()
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
seq_end()
(in
HelicalFragment
)
set_residue_range()
(in
InitializeByBins
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.generalized_kinematic_closure._protocols_generalized_kinematic_closure_
)
seq_from_file()
(in
SequenceFactory
)
set_residue_range()
(in
PerturbByBins
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.generalized_kinematic_closure.filter._protocols_generalized_kinematic_closure_filter_
)
seq_pdb_str()
(in
rosetta.protocols.dna._protocols_dna_
)
set_residue_range_not_surface()
(in
SurfaceEnergies
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
seq_sep_intercept()
(in
AbscriptStageMover
)
set_residue_selector()
(in
NotResidueSelector
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.generalized_kinematic_closure.selector._protocols_generalized_kinematic_closure_selector_
)
seq_sep_M2
(in
HBSeqSep
)
set_residue_type()
(in
ClassicMatchAlgorithm
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.grafting._protocols_grafting_
)
seq_sep_M2
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_residue_type()
(in
BuildSet
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.grafting.simple_movers._protocols_grafting_simple_movers_
)
seq_sep_M2
(in
rosetta.core.scoring.hbonds
)
set_residue_type_set()
(in
ImportPoseOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
seq_sep_M3
(in
HBSeqSep
)
set_residues()
(in
PreventResiduesFromRepackingOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.helical_bundle.parameters._protocols_helical_bundle_parameters_
)
seq_sep_M3
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_residues()
(in
RestrictResiduesToRepackingOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.helix_capper._protocols_helix_capper_
)
seq_sep_M3
(in
rosetta.core.scoring.hbonds
)
set_residues_adjacent_for_subunit_pair()
(in
SymmOnTheFlyEdge
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
seq_sep_M4
(in
HBSeqSep
)
set_residues_adjacent_for_subunit_pair_for_edge()
(in
SymmOnTheFlyInteractionGraph
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
seq_sep_M4
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_residues_for_atom_name_remapping()
(in
FileDataOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.indexed_structure_store.filters._protocols_indexed_structure_store_filters_
)
seq_sep_M4
(in
rosetta.core.scoring.hbonds
)
set_residues_per_repeat()
(in
BackboneGridSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.interface._protocols_interface_
)
seq_sep_MAX
(in
HBSeqSep
)
set_resinfo()
(in
PDBInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
seq_sep_MAX
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_resname()
(in
BackboneGridSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
seq_sep_MAX
(in
rosetta.core.scoring.hbonds
)
set_resname()
(in
MetalSiteResidue
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
seq_sep_other
(in
HBSeqSep
)
set_resnum()
(in
AppendResidueRotamerSet
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.loop_build._protocols_loop_build_
)
seq_sep_other
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_resnum()
(in
GeneralizedKICfilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.loop_modeling._protocols_loop_modeling_
)
seq_sep_other
(in
rosetta.core.scoring.hbonds
)
set_resnum()
(in
TryRotamers
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.loop_modeling.refiners._protocols_loop_modeling_refiners_
)
seq_sep_P2
(in
HBSeqSep
)
set_resnum()
(in
BoltzmannRotamerMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
seq_sep_P2
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_resnum()
(in
CoupledMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.loops.loop_mover._protocols_loops_loop_mover_
)
seq_sep_P2
(in
rosetta.core.scoring.hbonds
)
set_resnum()
(in
ShortBackrubMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
seq_sep_P3
(in
HBSeqSep
)
set_restore_csts()
(in
CartesianSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
seq_sep_P3
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_restrict_only_design_to_loops()
(in
RestrictToLoops
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
seq_sep_P3
(in
rosetta.core.scoring.hbonds
)
set_restrict_partners_to_chains()
(in
PeptideDeriverFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.md._protocols_md_
)
seq_sep_P4
(in
HBSeqSep
)
set_restrict_receptors_to_chains()
(in
PeptideDeriverFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
seq_sep_P4
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_restrict_restypes()
(in
LayerDesignOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
seq_sep_P4
(in
rosetta.core.scoring.hbonds
)
set_restrictions_aa()
(in
DsspDesignOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
seq_sep_PM1
(in
HBSeqSep
)
set_restrictions_append()
(in
DsspDesignOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.membrane.visualize._protocols_membrane_visualize_
)
seq_sep_PM1
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_restrictions_exclude()
(in
DsspDesignOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.moves._protocols_moves_
)
seq_sep_PM1
(in
rosetta.core.scoring.hbonds
)
set_restype()
(in
TargetRotamerCoords
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
seq_sep_type_from_name()
(in
HBondTypeManager
)
set_restype()
(in
SingleDownstreamResidueWriter
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
seq_start()
(in
HelicalFragment
)
set_restype_index()
(in
ResidueAtomTreeCollectionMomento
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.ncbb.oop._protocols_ncbb_oop_
)
seq_to_str()
(in
rosetta.protocols.dna._protocols_dna_
)
set_rho_to_zero()
(in
NonPlaidFingerprint
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.neighbor._protocols_neighbor_
)
seqdep_ref
(in
ScoreType
)
set_rigid_body_confs()
(in
RigidBodyMoveRSO
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
seqdep_ref
(in
rosetta.core.scoring._core_scoring_
)
set_rigid_body_confs_for_lig()
(in
EnzdesCacheableObserver
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.outputter._protocols_outputter_
)
seqdep_ref
(in
rosetta.core.scoring
)
set_rigid_body_mover()
(in
CoupledMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
seqdep_ref
(in
rosetta
)
set_ring_conformation()
(in
Pose
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
SeqDesignStrategyEnum
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_rm_virt_phosphate()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
SeqDesignStrategyEnum_total
(in
rosetta.protocols.antibody.design
)
set_rms_cutoff()
(in
CartesianSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
SeqDesignStrategyEnum_total
(in
SeqDesignStrategyEnum
)
set_rms_group_cutoff()
(in
SameSequenceAndDSPositionGrouper
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.relax._protocols_relax_
)
SeqDesignStrategyEnum_total
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
set_rmsd()
(in
AnchoredDesignMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.rigid._protocols_rigid_
)
seqmap()
(in
RemodelConstraintGenerator
)
set_rmsd_cutoff()
(in
StepWiseProteinBackboneSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
seqpos()
(in
Residue
)
set_RMSD_only_this()
(in
AnchoredDesignMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.rpc._protocols_rpc_
)
seqpos()
(in
Frame
)
set_rmsd_screen()
(in
StepWiseBasicOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
seqpos()
(in
JumpingFrame
)
set_rmsd_target_tolerance()
(in
ShakeStructureMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
seqpos()
(in
NonContinuousFrame
)
set_rmsd_unique_cutoff()
(in
LigandConformerBuilder
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.sic_dock.scores._protocols_sic_dock_scores_
)
seqpos()
(in
RDAT
)
set_rmsdcut()
(in
CombinePoseMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
seqpos()
(in
RotamerDots
)
set_rna()
(in
ImportPoseOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
seqpos()
(in
BackboneStubConstraint
)
set_rna_data_file()
(in
RNA_DeNovoProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.simple_moves.chiral._protocols_simple_moves_chiral_
)
seqpos()
(in
BackboneStubLinearConstraint
)
set_rna_params_file()
(in
RNA_DeNovoProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
seqpos()
(in
SequenceProfileConstraint
)
set_rna_secstruct()
(in
rosetta.protocols.farna._protocols_farna_
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
seqpos()
(in
ContactPartner
)
set_root()
(in
ResiduePairJumpSetup
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.legacy.screener._protocols_stepwise_legacy_screener_'
)
seqpos()
(in
BuildPosition
)
set_root_at_first_rigid_body()
(in
RNA_DeNovoProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
seqpos1()
(in
SequenceCouplingConstraint
)
set_root_at_first_rigid_body()
(in
RNA_StructureParameters
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
seqpos2()
(in
SequenceCouplingConstraint
)
set_root_atom()
(in
GoapRsdType
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.modeler.protein.checker._protocols_stepwise_modeler_protein_checker_
)
seqpos_for_geomcst()
(in
AllowedSeqposForGeomCst
)
set_root_partition_res()
(in
StepWisePoseAligner
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
seqpos_map_begin()
(in
EnzCstTemplateResCache
)
set_rosetta_scripts_tag()
(in
MultiplePoseMover
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.modeler.rna.checker._protocols_stepwise_modeler_rna_checker_
)
seqpos_map_end()
(in
EnzCstTemplateResCache
)
set_rot_mag()
(in
LHRepulsiveRamp
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.modeler.rna.o2prime._protocols_stepwise_modeler_rna_o2prime_
)
seqpos_map_size()
(in
EnzCstTemplateResCache
)
set_rot_magnitude()
(in
DockMCMCycle
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.sampler.copy_dofs._protocols_stepwise_sampler_copy_dofs_
)
seqprof()
(in
SeqprofConsensusOperation
)
set_rot_magnitude()
(in
DockingHighResLegacy
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.sampler.rigid_body._protocols_stepwise_sampler_rigid_body_
)
seqprof_wt_aa()
(in
RestrictConservedLowDdgOperation
)
set_rot_magnitude()
(in
DockingLowRes
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
SeqprofConsensusOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rotamer()
(in
OTFFlexbbNode
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.symmetric_docking.membrane._protocols_symmetric_docking_membrane_
)
SeqprofConsensusOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rotamer_operation()
(in
AppendRotamer
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
SeqprofConsensusOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rotamer_set_operation()
(in
AppendResidueRotamerSet
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
SeqprofConsensusOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rotamer_set_operation()
(in
AppendRotamerSet
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
SeqprofConsensusOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_rotamer_well_counts()
(in
PNatRotOptEPositionData
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
SeqprofConsensusOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_RotamerLibraryName()
(in
ResidueType
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
seqs()
(in
CompositeSequence
)
set_rotamers()
(in
SingleLigandRotamerLibrary
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.trajectory._protocols_trajectory_
)
seqs_from_cmd_lines()
(in
rosetta.core.sequence._core_sequence_
)
set_rotamers()
(in
OnTheFlyNode
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
sequence
(in
rosetta.core
)
set_rotamers()
(in
SymmOnTheFlyNode
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.vip._protocols_vip_
)
Sequence
(in
rosetta.core.sequence._core_sequence_
)
set_rotation()
(in
Jump
)
SingletonBase_T_core_chemical_ChemicalManager_TAP
(in
rosetta.protocols.wum2._protocols_wum2_
)
sequence()
(in
FragData
)
set_rotation()
(in
RT
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.chemical._core_chemical_
)
sequence()
(in
SingleResidueFragData
)
set_rotation_magnitude()
(in
CoupledMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
sequence()
(in
RawFileData
)
set_rotation_matrix()
(in
SymmData
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.chemical.orbitals._core_chemical_orbitals_
)
sequence()
(in
RawStruct
)
set_rotation_std_dev()
(in
CoupledMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
sequence()
(in
RDAT
)
set_rotation_std_dev()
(in
ShortBackrubMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.conformation._core_conformation_
)
sequence()
(in
SilentStruct
)
set_rottrial()
(in
ClassicRelax
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
sequence()
(in
SimpleSequenceData
)
set_rottrials_from_kic_segment()
(in
LoopMover_Refine_KIC
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
sequence()
(in
MiniPose
)
set_rotwell()
(in
DunbrackRotamerSampleData
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.fragment.picking_old.vall.eval._core_fragment_picking_old_vall_eval_
)
sequence()
(in
Pose
)
set_rounds()
(in
RNA_DeNovoProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
sequence()
(in
Sequence
)
set_rounds()
(in
CentroidRelax
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.io.raw_data._core_io_raw_data_
)
sequence()
(in
SequenceAlignment
)
set_rsd_id()
(in
StepWiseSamplerOneTorsion
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.io.silent._core_io_silent_
)
sequence()
(in
FragmentCandidate
)
set_rsd_id()
(in
RNA_ChiStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
sequence()
(in
RMSVallData
)
set_rsd_id()
(in
RNA_SugarStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
sequence()
(in
VallData
)
set_rsd_set()
(in
StepWiseProteinPoseSetup
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
sequence()
(in
BluePrint
)
set_rsd_set()
(in
InputStreamWithResidueInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.pack.task._core_pack_task_
)
sequence()
(in
ExtendedPoseMover
)
set_rsd_type_set()
(in
StepWiseLegacyClustererSilentBased
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
sequence()
(in
StepWiseBasicWorkingParameters
)
set_rsr_update_step()
(in
MDBase
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.pose._core_pose_
)
sequence_comparation
(in
rosetta.core.io
)
set_rt_min()
(in
AntibodyModelerProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.pose.metrics.simple_calculators._core_pose_metrics_simple_calculators_
)
SEQUENCE_COMPARISON
(in
rosetta.basic
)
set_rt_min()
(in
CDRsMinPackMin
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring._core_scoring_
)
SEQUENCE_COMPARISON
(in
ProfTag
)
set_rt_min()
(in
GraftCDRLoopsProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.bin_transitions._core_scoring_bin_transitions_
)
SEQUENCE_COMPARISON
(in
rosetta.basic._basic_
)
set_rt_min()
(in
LHRepulsiveRamp
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
sequence_coupling()
(in
SequenceCouplingConstraint
)
set_rt_min()
(in
RefineBetaBarrel
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.cryst._core_scoring_cryst_
)
sequence_indices()
(in
SequenceAlignment
)
set_rt_min()
(in
DockingHighRes
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.dna._core_scoring_dna_
)
sequence_map_from_pdbinfo()
(in
rosetta.core.pose._core_pose_
)
set_rt_min()
(in
DockingHighResLegacy
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
sequence_mapping()
(in
SequenceAlignment
)
set_rt_min()
(in
DockingProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
sequence_mapping()
(in
BuildManager
)
set_rtmin()
(in
DockMCMCycle
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
sequence_matches()
(in
Conformation
)
set_run_relax()
(in
AntibodyDesignProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.facts._core_scoring_facts_
)
SEQUENCE_PROFILE
(in
Enum
)
set_run_snugdock()
(in
AntibodyDesignProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
SEQUENCE_PROFILE
(in
CacheableDataType
)
set_run_start()
(in
WorkUnit
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
sequence_profile()
(in
SequenceProfileConstraint
)
set_run_stop()
(in
WorkUnit
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.membrane._core_scoring_membrane_
)
sequence_recovery()
(in
EnzdesSeqRecoveryCache
)
set_sa_length_scale()
(in
FASTERAnnealer
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
sequence_sep()
(in
HBEvalTuple
)
set_sa_scale()
(in
FASTER_IG_Repacker
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.methods.vall_lookback._core_scoring_methods_vall_lookback_
)
sequence_space()
(in
ProteinInterfaceMultiStateDesignMover
)
set_sample_bb()
(in
RNA_MC_Suite
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
SequenceAlignment
(in
rosetta.core.sequence._core_sequence_
)
set_sample_beta()
(in
StepWiseProteinModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
SequenceAlignmentAP
(in
rosetta.core.sequence._core_sequence_
)
set_sample_both_sugar_base_rotamer()
(in
StepWiseWorkingParametersSetup
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
SequenceAlignmentCAP
(in
rosetta.core.sequence._core_sequence_
)
set_sample_both_sugar_base_rotamer()
(in
StepWiseWorkingParameters
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
SequenceAlignmentHasher
(in
rosetta.core.sequence._core_sequence_
)
set_sample_five_prime_phosphate()
(in
RNA_ResidueLevelTask
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
SequenceAlignmentHasherAP
(in
rosetta.core.sequence._core_sequence_
)
set_sample_index()
(in
MutationSetDesignOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
SequenceAlignmentHasherCAP
(in
rosetta.core.sequence._core_sequence_
)
set_sample_level()
(in
SampleStrategyData
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
SequenceAnnotation
(in
rosetta.core.environment._core_environment_
)
set_sample_lower_nucleoside()
(in
RNA_MC_Suite
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.trie._core_scoring_trie_
)
SequenceAnnotationAP
(in
rosetta.core.environment._core_environment_
)
set_sample_near_a_form()
(in
RNA_MC_Suite
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.scoring.vdwaals._core_scoring_vdwaals_'
)
SequenceAnnotationCAP
(in
rosetta.core.environment._core_environment_
)
set_sample_nonpivot_torsions()
(in
KinematicMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.core.util._core_util_
)
SequenceAP
(in
rosetta.core.sequence._core_sequence_
)
set_sample_nucleoside()
(in
RNA_KIC_Sampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
SequenceCAP
(in
rosetta.core.sequence._core_sequence_
)
set_sample_nucleoside_lower()
(in
RNA_SuiteStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
SequenceClaim
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
set_sample_nucleoside_upper()
(in
RNA_SuiteStepWiseSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
SequenceClaimAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
set_sample_ONLY_multiple_virtual_sugar()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
SequenceClaimCAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
set_sample_range_large()
(in
AddMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
SequenceComparison
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_sample_range_large()
(in
RNA_AddDeleteMonteCarlo
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.antibody.database._protocols_antibody_database_
)
SequenceComparisonAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_sample_range_small()
(in
AddMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
SequenceComparisonCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_sample_range_small()
(in
RNA_AddDeleteMonteCarlo
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.antibody.task_operations._protocols_antibody_task_operations_
)
SequenceCoupling
(in
rosetta.core.sequence._core_sequence_
)
set_sample_rna_chi()
(in
RNA_ResidueLevelTask
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
SequenceCoupling1BDConstraint
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sample_startegy_for_constraint()
(in
Matcher
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.backrub._protocols_backrub_
)
SequenceCoupling1BDConstraintAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sample_strategy_for_chi()
(in
BuildSet
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
SequenceCoupling1BDConstraintCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sample_three_prime_phosphate()
(in
RNA_ResidueLevelTask
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
SequenceCoupling1BDConstraintCreator
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sample_upper_nucleoside()
(in
RNA_MC_Suite
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
SequenceCoupling1BDConstraintCreatorAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sample_zero_probs_at()
(in
AddCDRProfilesOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
SequenceCoupling1BDConstraintCreatorCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sample_zero_probs_at()
(in
ResidueProbDesignOperation
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.denovo_design.movers._protocols_denovo_design_movers_
)
SequenceCouplingAP
(in
rosetta.core.sequence._core_sequence_
)
set_sampler()
(in
ProteinUpstreamBuilder
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
SequenceCouplingCAP
(in
rosetta.core.sequence._core_sequence_
)
set_sampler_assert_no_virt_sugar_sampling()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.dna._protocols_dna_
)
SequenceCouplingConstraint
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sampler_extra_beta_rotamer()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.docking._protocols_docking_
)
SequenceCouplingConstraintAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sampler_extra_epsilon_rotamer()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.docking.membrane._protocols_docking_membrane_
)
SequenceCouplingConstraintCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sampler_include_torsion_value_in_tag()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.environment._protocols_environment_
)
SequenceCouplingConstraintCreator
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sampler_max_centroid_distance()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
SequenceCouplingConstraintCreatorAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sampler_max_centroid_distance()
(in
StepWiseMonteCarloOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.enzdes._protocols_enzdes_'
)
SequenceCouplingConstraintCreatorCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
set_sampler_num_pose_kept()
(in
StepWiseBasicOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.features._protocols_features_
)
SequenceCouplingCreator
(in
rosetta.core.sequence._core_sequence_
)
set_sampler_perform_phosphate_pack()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
SequenceCouplingCreatorAP
(in
rosetta.core.sequence._core_sequence_
)
set_sampler_perform_phosphate_pack()
(in
StepWiseMonteCarloOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
SequenceCouplingCreatorCAP
(in
rosetta.core.sequence._core_sequence_
)
set_sampler_silent_file()
(in
StepWiseBasicOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
SequenceCreator
(in
rosetta.core.sequence._core_sequence_
)
set_sampler_try_sugar_instantiation()
(in
StepWiseRNA_ModelerOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
SequenceCreatorAP
(in
rosetta.core.sequence._core_sequence_
)
set_sampler_values()
(in
RigidBodyStepWiseSamplerValueRange
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.forge.components._protocols_forge_components_
)
SequenceCreatorCAP
(in
rosetta.core.sequence._core_sequence_
)
set_samples()
(in
PerturbBundleOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
SequenceDependentRefEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_sampletype()
(in
GenericMonteCarloMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.forge.remodel._protocols_forge_remodel_'
)
SequenceDependentRefEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_sampling_fold_tree()
(in
KinematicControl
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
SequenceDependentRefEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_sampling_temperature()
(in
SidechainMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
SequenceDependentRefEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_sasa_cutoff()
(in
ConsensusDesignMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.generalized_kinematic_closure._protocols_generalized_kinematic_closure_
)
SequenceDependentRefEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_save_times()
(in
StepWiseMonteCarloOptions
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.generalized_kinematic_closure.filter._protocols_generalized_kinematic_closure_filter_
)
SequenceDependentRefEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_sc_min()
(in
AntibodyModelerProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
SequenceFactory
(in
rosetta.core.sequence._core_sequence_
)
set_sc_min()
(in
CDRsMinPackMin
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.generalized_kinematic_closure.selector._protocols_generalized_kinematic_closure_selector_
)
SequenceFactoryAP
(in
rosetta.core.sequence._core_sequence_
)
set_sc_min()
(in
GraftCDRLoopsProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.grafting._protocols_grafting_
)
SequenceFactoryCAP
(in
rosetta.core.sequence._core_sequence_
)
set_sc_min()
(in
LHRepulsiveRamp
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.grafting.simple_movers._protocols_grafting_simple_movers_
)
SequenceIdentity
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_sc_min()
(in
RefineBetaBarrel
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
SequenceIdentityAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_sc_min()
(in
DockingHighRes
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.helical_bundle.parameters._protocols_helical_bundle_parameters_
)
SequenceIdentityCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_sc_min()
(in
DockingHighResLegacy
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.helix_capper._protocols_helix_capper_
)
SequenceMapping
(in
rosetta.core.id._core_id_
)
set_sc_min()
(in
DockingProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
SequenceMappingAP
(in
rosetta.core.id._core_id_
)
set_sc_min()
(in
TemperedDocking
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
SequenceMappingCAP
(in
rosetta.core.id._core_id_
)
set_sc_min()
(in
ShakeStructureMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.indexed_structure_store.filters._protocols_indexed_structure_store_filters_
)
SequenceMover
(in
rosetta.protocols.moves._protocols_moves_
)
set_sc_min()
(in
SymDockProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.interface._protocols_interface_
)
SequenceMoverAP
(in
rosetta.protocols.moves._protocols_moves_
)
set_scaffold_flexibility()
(in
AnchoredGraftMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
SequenceMoverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
set_scaffold_flexibility()
(in
CCDEndsGraftMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
SequenceProfile
(in
rosetta.core.sequence._core_sequence_
)
set_scaffold_status()
(in
HotspotStub
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
SequenceProfileAP
(in
rosetta.core.sequence._core_sequence_
)
set_scaling()
(in
FavorSequenceProfile
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.loop_build._protocols_loop_build_
)
SequenceProfileCAP
(in
rosetta.core.sequence._core_sequence_
)
set_scmin()
(in
DockMCMCycle
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.loop_modeling._protocols_loop_modeling_
)
SequenceProfileConstraint
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_score()
(in
FragData
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.loop_modeling.refiners._protocols_loop_modeling_refiners_
)
SequenceProfileConstraintAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_score()
(in
Particle
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
SequenceProfileConstraintCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_score()
(in
XformScore
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.loops.loop_mover._protocols_loops_loop_mover_
)
SequenceProfileConstraintCreator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_score_component()
(in
FragmentScoreMap
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
SequenceProfileConstraintCreatorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_score_cutoff()
(in
DockingHighResFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
SequenceProfileConstraintCreatorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_score_diff_cut()
(in
StepWiseRNA_Clusterer
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
SequenceProfileCreator
(in
rosetta.core.sequence._core_sequence_
)
set_score_diff_cut()
(in
StepWiseLegacyClusterer
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.md._protocols_md_
)
SequenceProfileCreatorAP
(in
rosetta.core.sequence._core_sequence_
)
set_score_diff_cut()
(in
StepWiseLegacyClustererSilentBased
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SequenceProfileCreatorCAP
(in
rosetta.core.sequence._core_sequence_
)
set_score_file()
(in
ScoreMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
SequenceProfileMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_score_function()
(in
OnTheFlyInteractionGraph
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
SequenceProfileMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_score_function()
(in
SymmOnTheFlyInteractionGraph
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.membrane.visualize._protocols_membrane_visualize_
)
SequenceProfileMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_score_function()
(in
RefineOneCDRLoop
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.moves._protocols_moves_
)
SequenceProfileMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_score_function()
(in
RefineOneCDRLoopCentroid
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
SequenceProfileMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_score_function()
(in
GatherPosesMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
SequenceProfileMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_score_function()
(in
RNA_Minimizer
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.ncbb.oop._protocols_ncbb_oop_
)
SequenceRecoveryFilter
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_score_function()
(in
LoopBuilder
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.neighbor._protocols_neighbor_
)
SequenceRecoveryFilterAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_score_function()
(in
LoopProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
SequenceRecoveryFilterCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_score_function()
(in
MinimizationRefiner
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.outputter._protocols_outputter_
)
SequenceRecoveryFilterCreator
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_score_function()
(in
RepackingRefiner
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
SequenceRecoveryFilterCreatorAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_score_function()
(in
RotamerTrialsRefiner
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
SequenceRecoveryFilterCreatorCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_score_function()
(in
PrepareForFullatom
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
sequences()
(in
RDAT
)
set_score_function()
(in
DaemonSet
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
sequences_are_in_frame()
(in
SequenceAlignment
)
set_score_function()
(in
DynamicAggregateFunction
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.relax._protocols_relax_
)
SequenceShiftMover
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_score_function()
(in
PackDaemon
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.rigid._protocols_rigid_
)
SequenceShiftMoverAP
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_score_function()
(in
CentroidRelax
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
SequenceShiftMoverCAP
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_score_function()
(in
BoltzmannRotamerMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.rpc._protocols_rpc_
)
SEQUENTIAL
(in
rosetta.core.conformation.symmetry
)
set_score_function()
(in
RationalMonteCarlo
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
SEQUENTIAL
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_score_fxn()
(in
ClashBasedRepackShellSelector
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
SEQUENTIAL
(in
SlideType
)
set_score_fxn()
(in
CoupledMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.sic_dock.scores._protocols_sic_dock_scores_
)
sequential_order()
(in
Loops
)
set_score_margin()
(in
DockingHighResFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
SequentialSymmetrySlider
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_score_multiply()
(in
SymmetryInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
SequentialSymmetrySliderAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_score_multiply_from_subunit_factors()
(in
SymmetryInfo
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.simple_moves.chiral._protocols_simple_moves_chiral_
)
SequentialSymmetrySliderCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_score_multiply_subunit()
(in
SymmData
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
Serial_Refine
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_score_type()
(in
ConstraintScoreCutoffFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
Serial_RefineAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_score_type()
(in
ScoreCutoffFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.legacy.screener._protocols_stepwise_legacy_screener_'
)
Serial_RefineCAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_score_type()
(in
ConstrainToIdealMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
serialization
(in
rosetta.core.io
)
set_score_weight()
(in
ClassicAbinitio
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
serialize()
(in
CompoundInterpolator
)
set_score_weight()
(in
ConstraintFragmentSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.modeler.protein.checker._protocols_stepwise_modeler_protein_checker_
)
serialize()
(in
Interpolator
)
set_score_weight()
(in
FoldConstraints
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
serialize()
(in
SimpleInterpolator
)
set_score_weight()
(in
FragmentSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.modeler.rna.checker._protocols_stepwise_modeler_rna_checker_
)
serialize()
(in
WorkUnit_LoopHash
)
set_score_weight()
(in
JumpingFoldConstraintsWrapper
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.modeler.rna.o2prime._protocols_stepwise_modeler_rna_o2prime_
)
serialize()
(in
WorkUnit_CombinePose
)
set_score_weight()
(in
KinematicAbinitio
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.sampler.copy_dofs._protocols_stepwise_sampler_copy_dofs_
)
serialize()
(in
WorkUnit_FragInsert
)
set_score_weight()
(in
MembraneAbinitio
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.sampler.rigid_body._protocols_stepwise_sampler_rigid_body_
)
serialize()
(in
WorkUnit_KicCloser
)
set_scorefunction()
(in
SimpleInteractionGraph
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
serialize()
(in
WorkUnit_LoopHash
)
set_scorefunction()
(in
InterfaceAnalyzerMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.symmetric_docking.membrane._protocols_symmetric_docking_membrane_
)
serialize()
(in
WorkUnit_MD
)
set_scorefunction()
(in
AntibodyDesignModeler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
serialize()
(in
WorkUnit_NormalMode
)
set_scorefunction()
(in
AntibodyDesignMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
serialize()
(in
WorkUnit_PartialAbinitio
)
set_scorefunction()
(in
BackrubProtocol
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
serialize()
(in
WorkUnit_RamaPerturber
)
set_scorefunction()
(in
CanonicalSamplingMover
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
serialize()
(in
WorkUnit_Relax
)
set_scorefunction()
(in
DockingHighResFilter
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
serialize()
(in
WorkUnit_Sampler
)
set_scorefunction()
(in
DatabaseJobInputter
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.trajectory._protocols_trajectory_
)
serialize()
(in
WorkUnit_bbGauss
)
set_scorefunction()
(in
GeneralizedKICselector
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
serialize()
(in
WorkUnit_BatchRelax
)
set_scorefunction()
(in
BackboneTorsionPerturbation
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.vip._protocols_vip_
)
serialize()
(in
WorkUnit_BatchRelax_and_PostRescore
)
set_scorefunction()
(in
BackboneTorsionSampler
)
SingletonBase_T_core_chemical_ChemicalManager_TCAP
(in
rosetta.protocols.wum2._protocols_wum2_
)
serialize()
(in
SilentStructStore
)
set_scorefunction()
(in
CartesianHybridize
)
SingletonBase_T_core_chemical_RingConformerManager_T
(in
rosetta.core.chemical._core_chemical_
)
serialize()
(in
WorkUnit_MoverWrapper
)
set_scorefunction()
(in
CartesianSampler
)
SingletonBase_T_core_chemical_RingConformerManager_TAP
(in
rosetta.core.chemical._core_chemical_
)
serialize()
(in
WorkUnit_SilentStructStore
)
set_scorefunction()
(in
FoldTreeHybridize
)
SingletonBase_T_core_chemical_RingConformerManager_TCAP
(in
rosetta.core.chemical._core_chemical_
)
serialize_ids()
(in
rosetta.protocols.features._protocols_features_
)
set_scorefunction()
(in
SegmentHybridizer
)
SingletonBase_T_core_fragment_picking_old_FragmentLibraryManager_T
(in
rosetta.core.fragment.picking_old._core_fragment_picking_old_
)
serialize_residue_xyz_coords()
(in
rosetta.protocols.features._protocols_features_
)
set_scorefunction()
(in
GreenPacker
)
SingletonBase_T_core_fragment_picking_old_FragmentLibraryManager_TAP
(in
rosetta.core.fragment.picking_old._core_fragment_picking_old_
)
serialize_to_file()
(in
SilentStructStore
)
set_scorefunction()
(in
ShakeStructureMover
)
SingletonBase_T_core_fragment_picking_old_FragmentLibraryManager_TCAP
(in
rosetta.core.fragment.picking_old._core_fragment_picking_old_
)
serialize_weights()
(in
ScoreFunction
)
set_scorefunction()
(in
SidechainMCMover
)
SingletonBase_T_core_indexed_structure_store_StructureStoreManager_T
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
SerializedLoop
(in
rosetta.protocols.loops._protocols_loops_
)
set_scorefunction_min()
(in
AntibodyDesignModeler
)
SingletonBase_T_core_indexed_structure_store_StructureStoreManager_TAP
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
SerializedLoopAP
(in
rosetta.protocols.loops._protocols_loops_
)
set_scorefunction_min()
(in
AntibodyDesignMover
)
SingletonBase_T_core_indexed_structure_store_StructureStoreManager_TCAP
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
SerializedLoopCAP
(in
rosetta.protocols.loops._protocols_loops_
)
set_scorefxn()
(in
ResolutionSwitcher
)
SingletonBase_T_core_io_silent_SilentStructFactory_T
(in
rosetta.core.io.silent._core_io_silent_
)
Set()
(in
rosetta
)
set_scorefxn()
(in
GraftOneCDRLoop
)
SingletonBase_T_core_io_silent_SilentStructFactory_TAP
(in
rosetta.core.io.silent._core_io_silent_
)
set()
(in
DataCache_T_basic_datacache_CacheableData_T
)
set_scorefxn()
(in
GraftedStemOptimizer
)
SingletonBase_T_core_io_silent_SilentStructFactory_TCAP
(in
rosetta.core.io.silent._core_io_silent_
)
set()
(in
AtomID_Map_T_bool_T
)
set_scorefxn()
(in
AntibodyDesignProtocol
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_T
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
set()
(in
AtomID_Map_T_core_id_AtomID_T
)
set_scorefxn()
(in
MutateFrameworkForCluster
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_T
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
set()
(in
AtomID_Map_T_double_T
)
set_scorefxn()
(in
DockingHighRes
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_T
(in
rosetta.protocols.features._protocols_features_
)
set()
(in
AtomID_Map_T_numeric_xyzVector_T_double_T__T
)
set_scorefxn()
(in
DockingLowRes
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_TAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
set()
(in
NamedAtomID_Map_T_core_id_NamedAtomID_T
)
set_scorefxn()
(in
InterfaceFeatures
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_TAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
set()
(in
MoveMap
)
set_scorefxn()
(in
OTFFlexbbInteractionGraph
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_TAP
(in
rosetta.protocols.features._protocols_features_
)
set()
(in
AminoAcidNeighborSparseMatrix_T_float_T
)
set_scorefxn()
(in
DesignTask
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_TCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
set()
(in
ObserverCache
)
set_scorefxn()
(in
EvaluatedArchive
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_TCAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
set()
(in
EMapVector
)
set_scorefxn()
(in
LoopMover
)
SingletonBase_T_core_pack_dunbrack_RotamerLibrary_TCAP
(in
rosetta.protocols.features._protocols_features_
)
set()
(in
ElectronDensity
)
set_scorefxn()
(in
LoopRefineInnerCycle
)
SingletonBase_T_core_pack_interaction_graph_RotamerDotsRadiusData_T
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set()
(in
IntervalSet_T_double_T
)
set_scorefxn()
(in
LoopRefineInnerCycleContainer
)
SingletonBase_T_core_pack_interaction_graph_RotamerDotsRadiusData_TAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set()
(in
DeclareBond
)
set_scorefxn()
(in
RepackTrial
)
SingletonBase_T_core_pack_interaction_graph_RotamerDotsRadiusData_TCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set()
(in
TemplateHistory
)
set_scorefxn()
(in
ShearMinCCDTrial
)
SingletonBase_T_core_pack_interaction_graph_SurfacePotential_T
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set()
(in
BasicJob
)
set_scorefxn()
(in
SmallMinCCDTrial
)
SingletonBase_T_core_pack_interaction_graph_SurfacePotential_TAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set()
(in
AllowInsert
)
set_scorefxn()
(in
TryRotamers
)
SingletonBase_T_core_pack_interaction_graph_SurfacePotential_TCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_a_form_range()
(in
RNA_MC_Suite
)
set_scorefxn()
(in
RelaxProtocolBase
)
SingletonBase_T_core_pack_task_operation_ResLvlTaskOperationFactory_T
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
set_A_index()
(in
PCS_data_per_lanthanides
)
set_scorefxn()
(in
ChangeAndResetFoldTreeMover
)
SingletonBase_T_core_pack_task_operation_ResLvlTaskOperationFactory_TAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
set_A_index()
(in
PcsDataLanthanide
)
set_scorefxn()
(in
DisulfideInsertionMover
)
SingletonBase_T_core_pack_task_operation_ResLvlTaskOperationFactory_TCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
set_A_index()
(in
PCS_data_per_lanthanides_Ts1
)
set_scorefxn()
(in
DumpPdb
)
SingletonBase_T_core_scoring_constraints_ConstraintFactory_T
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_A_index()
(in
PCS_data_per_lanthanides_Ts2
)
set_scorefxn()
(in
GenericMonteCarloMover
)
SingletonBase_T_core_scoring_constraints_ConstraintFactory_TAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_A_index()
(in
PCS_data_per_lanthanides_Ts3
)
set_scorefxn()
(in
RepackSidechainsMover
)
SingletonBase_T_core_scoring_constraints_ConstraintFactory_TCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_A_index()
(in
PCS_data_per_lanthanides_Ts4
)
set_scorefxn()
(in
StepWiseProteinMinimizer
)
SingletonBase_T_core_scoring_constraints_ConstraintIO_T
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_aa()
(in
ResidueSelector
)
set_scorefxn()
(in
StepWiseConnectionSampler
)
SingletonBase_T_core_scoring_constraints_ConstraintIO_TAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_aa_probabilities()
(in
ResidueProbDesignOperation
)
set_scorefxn()
(in
StepWiseMinimizer
)
SingletonBase_T_core_scoring_constraints_ConstraintIO_TCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_aa_probability_set()
(in
ResidueProbDesignOperation
)
set_scorefxn()
(in
StepWiseMasterPacker
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_T
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
set_aa_type()
(in
SparseMatrixIndex
)
set_scorefxn()
(in
StepWisePacker
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_T
(in
rosetta.protocols.features._protocols_features_
)
set_ab_fold_tree()
(in
SetAtomTree
)
set_scorefxn()
(in
RNA_HelixAssembler
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_T
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_ab_info()
(in
AntibodyFeatures
)
set_scorefxn()
(in
MultiPhosphateSampler
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_TAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
set_abego()
(in
VarLengthBuild
)
set_scorefxn()
(in
VirtualSugarJustInTimeInstantiator
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_TAP
(in
rosetta.protocols.features._protocols_features_
)
set_accept_aborted_loops_()
(in
IndependentLoopMover
)
set_scorefxn()
(in
VirtualSugarSampler
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_TAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_active_pose_constraints()
(in
EnzdesCstParamCache
)
set_scorefxn()
(in
VirtualSugarSamplerFromStringList
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_TCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
set_active_site_grid()
(in
DownstreamAlgorithm
)
set_scorefxn()
(in
StepWiseMasterMover
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_TCAP
(in
rosetta.protocols.features._protocols_features_
)
set_active_site_grid()
(in
DownstreamBuilder
)
set_scorefxn_deriver()
(in
PeptideDeriverFilter
)
SingletonBase_T_core_scoring_geometric_solvation_GridInfo_TCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_add_delete_frequency()
(in
StepWiseMoveSelector
)
set_scorefxn_design()
(in
FlxbbDesign
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_T
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
set_add_delete_frequency()
(in
StepWiseMonteCarloOptions
)
set_scorefxn_min()
(in
AntibodyDesignProtocol
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_T
(in
rosetta.protocols.features._protocols_features_
)
set_add_hetatm()
(in
FoldTreeHybridize
)
set_scorefxn_minimize()
(in
DesignRepackMover
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_T
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_add_lead_zero_to_tag()
(in
StepWiseRNA_Clusterer
)
set_scorefxn_obj()
(in
MDBase
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_TAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
set_add_non_init_chunks()
(in
FoldTreeHybridize
)
set_scorefxn_pack()
(in
DockingHighRes
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_TAP
(in
rosetta.protocols.features._protocols_features_
)
set_add_peptide_plane_variants()
(in
StepWiseProteinPoseSetup
)
set_scorefxn_relax()
(in
FlxbbDesign
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_TAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_add_target_to_pose()
(in
AlignPoseToInvrotTreeMover
)
set_scorefxn_repack()
(in
DesignRepackMover
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_TCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
set_add_to_current()
(in
AddCDRProfileSetsOperation
)
set_scoretype()
(in
WorkUnit_FragInsert
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_TCAP
(in
rosetta.protocols.features._protocols_features_
)
set_add_to_current()
(in
AddCDRProfilesOperation
)
set_scoretype()
(in
WorkUnit_KicCloser
)
SingletonBase_T_core_scoring_geometric_solvation_WaterWeightGridSet_TCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_add_virt_res()
(in
StepWiseProteinPoseSetup
)
set_scoretype()
(in
WorkUnit_MD
)
SingletonBase_T_core_scoring_saxs_SinXOverX_T
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_add_virt_res_as_root()
(in
StepWiseWorkingParametersSetup
)
set_scoretype()
(in
WorkUnit_Relax
)
SingletonBase_T_core_scoring_saxs_SinXOverX_TAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_add_virt_res_as_root()
(in
StepWiseWorkingParameters
)
set_scoretypes()
(in
EtableEvaluator
)
SingletonBase_T_core_scoring_saxs_SinXOverX_TCAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_additional_task_operarations()
(in
DockTaskFactory
)
set_screen_all()
(in
MultiPhosphateSampler
)
SingletonBase_T_core_scoring_ScoringManager_T
(in
rosetta.core.scoring._core_scoring_
)
set_additional_task_operarations()
(in
DockingHighRes
)
set_script_from_lines()
(in
FastRelax
)
SingletonBase_T_core_scoring_ScoringManager_T
(in
rosetta.core.scoring.bin_transitions._core_scoring_bin_transitions_
)
set_additional_task_operarations()
(in
DockingProtocol
)
set_script_to_batchrelax_default()
(in
FastRelax
)
SingletonBase_T_core_scoring_ScoringManager_T
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_adduct_flag()
(in
ResidueType
)
set_sd()
(in
SetupNCSMover
)
SingletonBase_T_core_scoring_ScoringManager_T
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
set_adp_strategy()
(in
PhenixInterface
)
set_sd_ang()
(in
CentroidRotamerSampleData
)
SingletonBase_T_core_scoring_ScoringManager_TAP
(in
rosetta.core.scoring._core_scoring_
)
set_akash_dyepos()
(in
AnchorMoversData
)
set_sd_dih()
(in
CentroidRotamerSampleData
)
SingletonBase_T_core_scoring_ScoringManager_TAP
(in
rosetta.core.scoring.bin_transitions._core_scoring_bin_transitions_
)
set_align_file()
(in
StepWiseProteinPoseSetup
)
set_sd_dis()
(in
CentroidRotamerSampleData
)
SingletonBase_T_core_scoring_ScoringManager_TAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_align_only_over_base_atoms()
(in
StepWiseRNA_Clusterer
)
set_sd_range()
(in
SampleStrategyData
)
SingletonBase_T_core_scoring_ScoringManager_TAP
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
set_align_to_native()
(in
StepWiseRNA_PoseSetup
)
set_second_cycle()
(in
DockMCMProtocol
)
SingletonBase_T_core_scoring_ScoringManager_TCAP
(in
rosetta.core.scoring._core_scoring_
)
set_aligned_chunk()
(in
InsertChunkMover
)
set_second_expression()
(in
BinaryExpression
)
SingletonBase_T_core_scoring_ScoringManager_TCAP
(in
rosetta.core.scoring.bin_transitions._core_scoring_bin_transitions_
)
set_alignment_res()
(in
StepWiseWorkingParametersSetup
)
set_secstruct()
(in
Conformation
)
SingletonBase_T_core_scoring_ScoringManager_TCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_all_chi()
(in
Residue
)
set_secstruct()
(in
SymmetricConformation
)
SingletonBase_T_core_scoring_ScoringManager_TCAP
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
set_all_energies()
(in
DecoySetEvaluation
)
set_secstruct()
(in
SecstructSRFD
)
SingletonBase_T_core_sequence_SequenceFactory_T
(in
rosetta.core.sequence._core_sequence_
)
set_all_extra_parameters()
(in
AtomType
)
set_secstruct()
(in
RNA_SilentStruct
)
SingletonBase_T_core_sequence_SequenceFactory_TAP
(in
rosetta.core.sequence._core_sequence_
)
set_all_flags()
(in
ClusteringTreeNode
)
set_secstruct()
(in
Pose
)
SingletonBase_T_core_sequence_SequenceFactory_TCAP
(in
rosetta.core.sequence._core_sequence_
)
set_all_rna_fragments_file()
(in
RNA_DeNovoProtocol
)
set_secstruct()
(in
ProtectedConformation
)
SingletonBase_T_protocols_evaluation_EvaluatorFactory_T
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_allow_anchor_repack()
(in
AnchorMoversData
)
set_secstruct()
(in
RNA_SecStructInfo
)
SingletonBase_T_protocols_evaluation_EvaluatorFactory_TAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_allow_base_pair_only_centroid_screen()
(in
StepWiseRNA_ModelerOptions
)
set_secstruct()
(in
TorsionFragment
)
SingletonBase_T_protocols_evaluation_EvaluatorFactory_TCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_allow_base_pair_only_screen()
(in
RNA_BaseCentroidChecker
)
set_secstruct()
(in
JumpSelector
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_T
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
set_allow_bondangles()
(in
MakeBundleHelix
)
set_secstruct()
(in
StepWiseProteinPoseSetup
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_T
(in
rosetta.protocols.multistate_design._protocols_multistate_design_'
)
set_allow_bondangles()
(in
BundleParameters
)
set_secstruct_from_dssp()
(in
rosetta.protocols.loops._protocols_loops_
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_T
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_allow_bondlengths()
(in
MakeBundleHelix
)
set_secstruct_from_psipred_ss2()
(in
rosetta.protocols.loops._protocols_loops_
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_TAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
set_allow_bondlengths()
(in
BundleParameters
)
set_seed()
(in
RandomGenerator
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_TAP
(in
rosetta.protocols.multistate_design._protocols_multistate_design_'
)
set_allow_bulge_at_chainbreak()
(in
StepWiseRNA_ModelerOptions
)
set_segdef()
(in
WorkUnit_bbGauss
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_TAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_allow_chain_boundary_jump_partner_right_at_fixed_BP()
(in
StepWiseWorkingParametersSetup
)
set_segment()
(in
GaussianRBSegmentMover
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_TCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
set_allow_consecutive_bulges()
(in
RNA_DeNovoProtocol
)
set_segment()
(in
HelicalGaussianMover
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_TCAP
(in
rosetta.protocols.multistate_design._protocols_multistate_design_'
)
set_allow_delete()
(in
StepWiseMoveSelector
)
set_segment()
(in
RBSegmentMover
)
SingletonBase_T_protocols_genetic_algorithm_EntityElementFactory_TCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_allow_design_cdr()
(in
RestrictToCDRsAndNeighbors
)
set_segment()
(in
SequenceShiftMover
)
SingletonBase_T_protocols_jd2_JobInputterFactory_T
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_allow_design_neighbor_antigen()
(in
RestrictToCDRsAndNeighbors
)
set_segment()
(in
StrandTwistingMover
)
SingletonBase_T_protocols_jd2_JobInputterFactory_TAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_allow_design_neighbor_framework()
(in
RestrictToCDRsAndNeighbors
)
set_selected_ss()
(in
SecondaryStructureSelector
)
SingletonBase_T_protocols_jd2_JobInputterFactory_TCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_allow_dihedrals()
(in
MakeBundleHelix
)
set_selection_low()
(in
BackboneGridSampler
)
SingletonBase_T_protocols_jd2_JobOutputterFactory_T
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_allow_dihedrals()
(in
BundleParameters
)
set_selection_low()
(in
BundleGridSampler
)
SingletonBase_T_protocols_jd2_JobOutputterFactory_TAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_allow_dof()
(in
SymDof
)
set_selectmode()
(in
MDBase
)
SingletonBase_T_protocols_jd2_JobOutputterFactory_TCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
set_allow_fixed_res_at_moving_res()
(in
StepWiseWorkingParametersSetup
)
set_selector()
(in
AbscriptLoopCloserCM
)
SingletonBase_T_protocols_jumping_StandardDisulfPairingLibrary_T
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_allow_insert()
(in
CoarseRNA_LoopCloser
)
set_selector()
(in
FragmentCM
)
SingletonBase_T_protocols_jumping_StandardDisulfPairingLibrary_T
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_allow_insert()
(in
RNA_ChunkLibrary
)
set_selector()
(in
FragmentJumpCM
)
SingletonBase_T_protocols_jumping_StandardDisulfPairingLibrary_TAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_allow_insert()
(in
RNA_Minimizer
)
set_selector_kbt()
(in
GeneralizedKIC
)
SingletonBase_T_protocols_jumping_StandardDisulfPairingLibrary_TAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_allow_insert()
(in
RNA_StructureParameters
)
set_selector_scorefunction()
(in
GeneralizedKIC
)
SingletonBase_T_protocols_jumping_StandardDisulfPairingLibrary_TCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_allow_insert()
(in
ConstrainToIdealMover
)
set_selector_type()
(in
GeneralizedKIC
)
SingletonBase_T_protocols_jumping_StandardDisulfPairingLibrary_TCAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_allow_internal_hinge()
(in
StepWiseMoveSelector
)
set_selector_type()
(in
GeneralizedKICselector
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_T
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_allow_internal_hinge_moves()
(in
StepWiseMonteCarloOptions
)
set_semi_energy_dist()
(in
RotData
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_T
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_allow_internal_local()
(in
StepWiseMoveSelector
)
set_semi_prob_dist()
(in
RotData
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_T
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
set_allow_internal_local_moves()
(in
StepWiseMonteCarloOptions
)
set_semirotameric_ncaa_rotlib()
(in
ResidueType
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_T
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_allow_phosphate_virtualization()
(in
RNA_ResidueLevelTask
)
set_seq_design_options()
(in
AntibodyDesignMover
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_T
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_allow_rebuild_bulge_mode()
(in
StepWiseRNA_ModelerOptions
)
set_seq_recovery_cache()
(in
EnzdesCacheableObserver
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_allow_scoring()
(in
MembraneTopology
)
set_seq_sep_ramping()
(in
AbscriptStageMover
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_allow_split_off()
(in
StepWiseMonteCarloOptions
)
set_seq_sep_scale()
(in
SecondaryStructureWeights
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
set_allow_syn_pyrimidine()
(in
StepWiseRNA_ModelerOptions
)
set_seqfrags_only()
(in
CartesianHybridize
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_allow_tmh_scoring()
(in
MembraneTopology
)
set_seqmap()
(in
RemodelConstraintGenerator
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_allow_virtual_o2prime_hydrogens()
(in
StepWiseRNA_ModelerOptions
)
set_seqpos()
(in
RDAT
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_allow_virtual_o2prime_hydrogens()
(in
StepWisePacker
)
set_seqpos()
(in
MetalSiteResidue
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TCAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_allow_virtual_o2prime_hydrogens()
(in
PolarHydrogenPacker
)
set_seqprof()
(in
SeqprofConsensusOperation
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TCAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
set_allow_virtual_o2prime_hydrogens()
(in
StepWiseMonteCarloOptions
)
set_sequence()
(in
FragData
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_allow_virtual_side_chains()
(in
StepWiseProteinModelerOptions
)
set_sequence()
(in
SingleResidueFragData
)
SingletonBase_T_protocols_jumping_StandardPairingLibrary_TCAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_allow_virtual_side_chains()
(in
StepWisePacker
)
set_sequence()
(in
RDAT
)
SingletonBase_T_protocols_loops_loop_mover_refine_LoopRefineInnerCycleFactory_T
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_allow_virtual_side_chains()
(in
StepWiseMonteCarloOptions
)
set_sequence()
(in
SimpleSequenceData
)
SingletonBase_T_protocols_loops_loop_mover_refine_LoopRefineInnerCycleFactory_TAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_allowed_bulge_res()
(in
RNA_DeNovoProtocol
)
set_sequence()
(in
TorsionFragment
)
SingletonBase_T_protocols_loops_loop_mover_refine_LoopRefineInnerCycleFactory_TCAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_alpha()
(in
Pose
)
set_sequence()
(in
FavorSequenceProfile
)
SingletonBase_T_protocols_loops_LoopMoverFactory_T
(in
rosetta.protocols.loops._protocols_loops_
)
set_alpha()
(in
EulerAngles
)
set_sequence()
(in
StepWiseBasicWorkingParameters
)
SingletonBase_T_protocols_loops_LoopMoverFactory_TAP
(in
rosetta.protocols.loops._protocols_loops_
)
set_alt_state()
(in
FlexbbEdge
)
set_sequence()
(in
EnzdesSeqRecoveryCache
)
SingletonBase_T_protocols_loops_LoopMoverFactory_TCAP
(in
rosetta.protocols.loops._protocols_loops_
)
set_alternate()
(in
SimpleNode
)
set_sequence_coupling()
(in
SequenceCouplingConstraint
)
SingletonBase_T_protocols_loops_loops_definers_LoopsDefinerFactory_T
(in
rosetta.protocols.loops.loops_definers._protocols_loops_loops_definers_
)
set_alternate_no_E_update()
(in
SimpleNode
)
set_sequence_profile()
(in
SequenceProfileConstraint
)
SingletonBase_T_protocols_loops_loops_definers_LoopsDefinerFactory_TAP
(in
rosetta.protocols.loops.loops_definers._protocols_loops_loops_definers_
)
set_amino_acid_types()
(in
PDNode
)
set_sequences()
(in
RDAT
)
SingletonBase_T_protocols_loops_loops_definers_LoopsDefinerFactory_TCAP
(in
rosetta.protocols.loops.loops_definers._protocols_loops_loops_definers_
)
set_amino_acid_types()
(in
FlexbbNode
)
set_set_up_metal_bonds()
(in
ImportPoseOptions
)
SingletonBase_T_protocols_matdes_SymDofMoverSampler_T
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_anchor_noise_constraints_mode()
(in
AnchorMoversData
)
set_sfxn()
(in
FlexPacker
)
SingletonBase_T_protocols_matdes_SymDofMoverSampler_TAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_anchor_res()
(in
SeedFoldTree
)
set_sfxn()
(in
BackboneGridSampler
)
SingletonBase_T_protocols_matdes_SymDofMoverSampler_TCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_anchor_residue()
(in
SymmData
)
set_sfxn()
(in
BundleGridSampler
)
SingletonBase_T_protocols_rosetta_scripts_PoseSelectorFactory_T
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_anchor_via_constraints()
(in
AnchorMoversData
)
set_sfxn()
(in
KinematicMover
)
SingletonBase_T_protocols_rosetta_scripts_PoseSelectorFactory_TAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_ang_D1D2D3()
(in
ExternalGeomSampler
)
set_sfxn_cycles()
(in
LoopProtocol
)
SingletonBase_T_protocols_rosetta_scripts_PoseSelectorFactory_TCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
set_ang_U1D2_samples()
(in
ExternalGeomSampler
)
set_shadowing_atom()
(in
ResidueType
)
SingletonBase_T_protocols_rotamer_recovery_RotamerRecoveryFactory_T
(in
rosetta.protocols.rotamer_recovery._protocols_rotamer_recovery_
)
set_ang_U2D1_samples()
(in
ExternalGeomSampler
)
set_shared_silent_data()
(in
SilentFileData
)
SingletonBase_T_protocols_rotamer_recovery_RotamerRecoveryFactory_TAP
(in
rosetta.protocols.rotamer_recovery._protocols_rotamer_recovery_
)
set_angle()
(in
CentroidRotamerSampleData
)
set_sharpen_b()
(in
PhenixInterface
)
SingletonBase_T_protocols_rotamer_recovery_RotamerRecoveryFactory_TCAP
(in
rosetta.protocols.rotamer_recovery._protocols_rotamer_recovery_
)
set_angle()
(in
NatbiasHelixPairPotential
)
set_sheets()
(in
FoldTreeHybridize
)
SingletonBase_T_protocols_scoring_InterchainPotential_T
(in
rosetta.protocols.scoring._protocols_scoring_
)
set_angle()
(in
MC_OneTorsion
)
set_short_backrub_mover()
(in
CoupledMover
)
SingletonBase_T_protocols_scoring_InterchainPotential_T
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_angle_atom()
(in
GoapRsdType
)
set_show_extended()
(in
AnchoredDesignMover
)
SingletonBase_T_protocols_scoring_InterchainPotential_TAP
(in
rosetta.protocols.scoring._protocols_scoring_
)
set_angle_params_helices_on_sheet()
(in
NatbiasHelicesSheetPotential
)
set_show_viol_level()
(in
FoldConstraints
)
SingletonBase_T_protocols_scoring_InterchainPotential_TAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_angle_params_helix_sheet()
(in
NatbiasHelicesSheetPotential
)
set_shrink_factor()
(in
Bool3DGridKinemageWriter
)
SingletonBase_T_protocols_scoring_InterchainPotential_TCAP
(in
rosetta.protocols.scoring._protocols_scoring_
)
set_angle_range()
(in
TorsionDOFMover
)
set_silent_file()
(in
StepWiseClusterer
)
SingletonBase_T_protocols_scoring_InterchainPotential_TCAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_angle_range()
(in
MC_OneTorsion
)
set_silent_file()
(in
StepWiseProteinBackboneSampler
)
SingletonBase_T_protocols_scoring_methods_pcs2_PcsEnergyParameterManager_T
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
set_angle_ranges()
(in
SymDofMoverSampler
)
set_silent_file()
(in
RNA_AddDeleteMonteCarlo
)
SingletonBase_T_protocols_scoring_methods_pcs2_PcsEnergyParameterManager_TAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
set_angle_sigma2()
(in
NatbiasHelixPairPotential
)
set_silent_file()
(in
StepWiseBasicOptions
)
SingletonBase_T_protocols_scoring_methods_pcs2_PcsEnergyParameterManager_TCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
set_angle_tolerance()
(in
SheetConstraintsRCG
)
set_silent_file_data()
(in
SilentFilePoseInputStream
)
SingletonBase_T_protocols_scoring_methods_pcs2_PcsGridSearchParameterManager_T
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
set_angle_wts()
(in
NatbiasHelixPairPotential
)
set_silent_file_data()
(in
StepWiseLegacyClustererSilentBased
)
SingletonBase_T_protocols_scoring_methods_pcs2_PcsGridSearchParameterManager_TAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
set_angles()
(in
SymDofMoverSampler
)
set_silent_file_name()
(in
SilentFileJobOutputter
)
SingletonBase_T_protocols_scoring_methods_pcs2_PcsGridSearchParameterManager_TCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
set_angles()
(in
BackboneMover
)
set_silent_file_out()
(in
VirtualSugarSamplerFromStringList
)
SingletonBase_T_protocols_scoring_methods_pcs_PCS_data_input_manager_T
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
set_angles()
(in
ShearMover
)
set_silent_files_in()
(in
StepWiseRNA_PoseSetup
)
SingletonBase_T_protocols_scoring_methods_pcs_PCS_data_input_manager_TAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
set_angles()
(in
SmallMover
)
set_silent_files_in()
(in
StepWiseWorkingParametersSetup
)
SingletonBase_T_protocols_scoring_methods_pcs_PCS_data_input_manager_TCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
set_annotations()
(in
RDAT
)
set_silent_files_in()
(in
StepWiseRNA_CombineLongLoopFilterer
)
SingletonBase_T_utility_Inline_File_Provider_T
(in
rosetta.utility._utility_
)
set_antiparallel_weight()
(in
SecondaryStructureWeights
)
set_silent_struct_type()
(in
SilentFileOptions
)
SingletonBase_T_utility_Inline_File_Provider_TAP
(in
rosetta.utility._utility_
)
set_apply_residue_alternative_sampler_()
(in
SampleApplier
)
set_silentout_file_name()
(in
Protocol
)
SingletonBase_T_utility_Inline_File_Provider_TCAP
(in
rosetta.utility._utility_
)
set_apply_vdw_cut()
(in
StepWiseProteinBackboneSampler
)
set_sim()
(in
APCluster
)
SingleValuePoseEvaluator_Size
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_apply_virtual_res_variant_at_dinucleotide()
(in
StepWiseRNA_PoseSetup
)
set_simple_append_map()
(in
StepWiseWorkingParametersSetup
)
SingleValuePoseEvaluator_SizeAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_approved()
(in
DofClaim
)
set_single_loop_fold_tree()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
SingleValuePoseEvaluator_SizeCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_archive()
(in
MPIArchiveJobDistributor
)
set_single_loop_fold_tree()
(in
rosetta.protocols.loops._protocols_loops_
)
SingleValuePoseEvaluator_SSize
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_assert_jump_point_in_fixed_res()
(in
StepWiseWorkingParametersSetup
)
set_Size
(in
rosetta.utility._utility_
)
SingleValuePoseEvaluator_SSizeAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_assign_state_to_all_nodes_immediately()
(in
RotamerAssigningAnnealer
)
set_size()
(in
SmallMol
)
SingleValuePoseEvaluator_SSizeCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_assume_atom_ids_invariant()
(in
StepWiseClusterer
)
set_size_and_nbb()
(in
TorsionFragment
)
SingleValuePoseEvaluator_T_double_T
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_asymm_unit_fold_tree()
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_skip_bulge_frequency()
(in
StepWiseMoveSelector
)
SingleValuePoseEvaluator_T_double_TAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_asymm_unit_fold_tree()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
set_skip_bulge_frequency()
(in
StepWiseMonteCarloOptions
)
SingleValuePoseEvaluator_T_double_TCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_atmid()
(in
GoapRsdType
)
set_skip_clustering()
(in
StepWiseRNA_Clusterer
)
SingleValuePoseEvaluator_T_long_int_T
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_atom_base()
(in
ResidueType
)
set_skip_completely_buried_positions()
(in
Bool3DGridKinemageWriter
)
SingleValuePoseEvaluator_T_long_int_TAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_atom_type()
(in
ResidueType
)
set_skip_complicated_stuff()
(in
StepWiseWorkingParametersSetup
)
SingleValuePoseEvaluator_T_long_int_TCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_atoms()
(in
JumpClaim
)
set_skip_coord_constraints()
(in
StepWiseProteinModelerOptions
)
SingleValuePoseEvaluator_T_long_unsigned_int_T
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_atr_rep_screen()
(in
StepWiseBasicOptions
)
set_skip_coord_constraints()
(in
StepWiseMonteCarloOptions
)
SingleValuePoseEvaluator_T_long_unsigned_int_TAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_atrdist_params_helix_strands()
(in
NatbiasHelicesSheetPotential
)
set_skip_deletions()
(in
StepWiseMonteCarloOptions
)
SingleValuePoseEvaluator_T_long_unsigned_int_TCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
set_attached_res()
(in
Attachment
)
set_skip_long_min()
(in
CartesianHybridize
)
SinXOverX
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_attachment_type()
(in
Attachment
)
set_skip_low_temp_phase()
(in
ShakeStructureMover
)
SinXOverXAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_attachments()
(in
StepWiseMove
)
set_skip_lr()
(in
RBSegmentRelax
)
SinXOverXCAP
(in
rosetta.core.scoring.saxs._core_scoring_saxs_
)
set_auto_frag_insertion_weight()
(in
FoldTreeHybridize
)
set_skip_minimize()
(in
StepWiseBasicModelerOptions
)
site_constraint
(in
ScoreType
)
set_auto_tune()
(in
StepWiseLegacyClusterer
)
set_skip_reporting()
(in
InterfaceAnalyzerMover
)
site_constraint
(in
rosetta.core.scoring._core_scoring_
)
set_auto_tune()
(in
StepWiseLegacyClustererSilentBased
)
set_skip_same_pucker()
(in
RNA_KIC_Sampler
)
site_constraint
(in
rosetta.core.scoring
)
set_auto_update()
(in
NeighborList
)
set_skip_same_pucker()
(in
RNA_MC_Sugar
)
site_constraint
(in
rosetta
)
set_autofilter()
(in
RNA_DeNovoProtocol
)
set_skip_same_pucker()
(in
RNA_MC_Suite
)
SITE_CST
(in
Enum
)
set_autofoldtree()
(in
DockingProtocol
)
set_skip_same_pucker()
(in
RNA_NucleosideStepWiseSampler
)
SITE_CST
(in
CacheableDataType
)
set_autofoldtree()
(in
TemperedDocking
)
set_skip_same_pucker()
(in
RNA_SugarStepWiseSampler
)
SiteConstraint
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_autoinitialize()
(in
AnchoredDesignMover
)
set_skip_same_pucker()
(in
RNA_SuiteStepWiseSampler
)
SiteConstraintAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_autotemp()
(in
MonteCarlo
)
set_skip_sampling()
(in
AnchoredGraftMover
)
SiteConstraintCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_babmotifs()
(in
BetaAlphaBetaMotifSet
)
set_skip_set_reasonable_fold_tree()
(in
ImportPoseOptions
)
SiteConstraintCreator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_backbone_acceptor()
(in
HBondSet
)
set_skip_stage1()
(in
ClassicAbinitio
)
SiteConstraintCreatorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_backbone_donor()
(in
HBondSet
)
set_skip_stage2()
(in
ClassicAbinitio
)
SiteConstraintCreatorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_bin
(in
perturber_effect
)
set_SlaveCanOpenFile()
(in
MpiFileBuffer
)
SiteConstraintResidues
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_bin
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
set_slice_res()
(in
InputStreamWithResidueInfo
)
SiteConstraintResiduesAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_bin
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
set_slide_axis()
(in
SurfaceParameters
)
SiteConstraintResiduesCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_burial()
(in
RNA_DataInfo
)
set_slide_criteria()
(in
SymmetrySlider
)
SiteConstraintResiduesCreator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_exposed()
(in
RNA_DataInfo
)
set_slide_info()
(in
SymmData
)
SiteConstraintResiduesCreatorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_heavyatom()
(in
ResidueType
)
set_slide_order()
(in
SymSlideInfo
)
SiteConstraintResiduesCreatorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_backbone_only()
(in
InputStreamWithResidueInfo
)
set_slide_threshold()
(in
SymmetrySlider
)
SixDCoordinateBinner
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
set_backrub_mover()
(in
BackrubProtocol
)
set_slide_type()
(in
SymSlideInfo
)
SixDCoordinateBinnerAP
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
set_bad()
(in
InnerJob
)
set_SlideCriteriaType()
(in
SymSlideInfo
)
SixDCoordinateBinnerCAP
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
set_bad()
(in
Job
)
set_SlideCriteriaVal()
(in
SymSlideInfo
)
SixDOffsetTree
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
set_bad_nter()
(in
AntibodyModelerProtocol
)
set_slope()
(in
LinearPenaltyFunction
)
SixDOffsetTreeAP
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
set_bad_nter()
(in
ModelCDRH3
)
set_small_frag_insertion_weight()
(in
FoldTreeHybridize
)
SixDOffsetTreeCAP
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
set_base_and_pucker_state()
(in
SugarModeling
)
set_small_fragments()
(in
MRMover
)
size()
(in
DataCache_T_basic_datacache_CacheableData_T
)
set_base_only()
(in
RestrictDesignToProteinDNAInterface
)
set_snugdock_foldtree()
(in
AntibodyModeler
)
size()
(in
DataMap
)
set_base_partner()
(in
rosetta.core.scoring.dna._core_scoring_dna_
)
set_SnugFit()
(in
AntibodyModelerProtocol
)
size()
(in
RingConformerSet
)
set_base_segment_chainbreak_constraints()
(in
rosetta.protocols.dna._protocols_dna_
)
set_snugfit()
(in
RefineOneCDRLoopCentroid
)
size()
(in
Conformation
)
set_base_state()
(in
RNA_ChiStepWiseSampler
)
set_solution_picker()
(in
KicMover
)
size()
(in
PseudoBondCollection
)
set_base_state()
(in
RNA_KIC_Sampler
)
set_solvation()
(in
RotData
)
size()
(in
FragData
)
set_batch_description()
(in
ReportToDB
)
set_source_size()
(in
subset_mapping
)
size()
(in
FragSet
)
set_batch_name()
(in
ReportToDB
)
set_sparse_aa_info()
(in
AminoAcidNeighborSparseMatrix_T_float_T
)
size()
(in
Book_T_core_fragment_picking_old_vall_VallResidues_T
)
set_batch_relax()
(in
HybridizeProtocol
)
set_sparse_aa_info()
(in
DensePDEdge
)
size()
(in
Library_T_core_fragment_picking_old_vall_VallSections_T
)
set_bb()
(in
MoveMap
)
set_sparse_aa_info()
(in
DoubleDensePDEdge
)
size()
(in
EdgeList
)
set_bb()
(in
FlexbbSparseMatrixIndex
)
set_sparse_aa_info()
(in
DoubleLazyEdge
)
size()
(in
AtomID_Map_T_bool_T
)
set_bb()
(in
RotData
)
set_sparse_aa_info()
(in
FASTEREdge
)
size()
(in
AtomID_Map_T_core_id_AtomID_T
)
set_bb()
(in
SetupNCSMover
)
set_sparse_aa_info()
(in
FixedBBEdge
)
size()
(in
AtomID_Map_T_double_T
)
set_bb_dihedral_tolerance()
(in
SheetConstraintsRCG
)
set_sparse_aa_info()
(in
LazyEdge
)
size()
(in
AtomID_Map_T_numeric_xyzVector_T_double_T__T
)
set_bb_grid()
(in
DownstreamAlgorithm
)
set_sparse_aa_info()
(in
LinearMemEdge
)
size()
(in
NamedAtomID_Map_T_core_id_NamedAtomID_T
)
set_bb_grid()
(in
DownstreamBuilder
)
set_sparse_aa_info()
(in
OnTheFlyEdge
)
size()
(in
RawFileData
)
set_bb_grid()
(in
LigandConformerBuilder
)
set_sparse_aa_info()
(in
PDEdge
)
size()
(in
SilentFileData
)
set_bb_grid()
(in
RigidLigandBuilder
)
set_sparse_aa_info()
(in
PrecomputedPairEnergiesEdge
)
size()
(in
AtomTree
)
set_bb_grid()
(in
UpstreamBuilder
)
set_sparse_aa_info()
(in
SymmLinearMemEdge
)
size()
(in
FoldTree
)
set_bb_id()
(in
RotData
)
set_sparse_aa_info()
(in
SymmMinimalistEdge
)
size()
(in
AminoAcidNeighborSparseMatrix_T_float_T
)
set_bb_true_range()
(in
MoveMap
)
set_sparse_aa_info()
(in
SymmOnTheFlyEdge
)
size()
(in
TaskFactory
)
set_bb_xyz_aligned()
(in
InsertChunkMover
)
set_sparse_aa_info_for_edge()
(in
FixedBBInteractionGraph
)
size()
(in
MiniPose
)
set_bbmove()
(in
CartesianSampler
)
set_sparse_aa_info_for_edge()
(in
OnTheFlyInteractionGraph
)
size()
(in
PDBPoseMap
)
set_BenchMark()
(in
AntibodyModelerProtocol
)
set_spin()
(in
DockingInitialPerturbation
)
size()
(in
FullModelInfo
)
set_benchmark()
(in
GraftCDRLoopsProtocol
)
set_ss_cutoff()
(in
SecondaryStructureWeights
)
size()
(in
FullModelParameters
)
set_benchmark()
(in
RefineOneCDRLoopCentroid
)
set_ss_from_phipsi()
(in
rosetta.core.pose._core_pose_
)
size()
(in
CenListInfo
)
set_bendangle()
(in
NatbiasHelixPairPotential
)
set_ss_from_str()
(in
VallResidue
)
size()
(in
DenseEnergyContainer
)
set_beta()
(in
Pose
)
set_ss_lowstrand()
(in
SecondaryStructureWeights
)
size()
(in
Energies
)
set_beta()
(in
EulerAngles
)
set_ssid()
(in
WorkUnit_LoopHash
)
size()
(in
GenBornPoseInfo
)
set_bias_sampling()
(in
BoltzmannRotamerMover
)
set_ssid()
(in
WorkUnit_LoopHash
)
size()
(in
GenBornResidueInfo
)
set_bias_sampling()
(in
CoupledMover
)
set_SSize
(in
rosetta.utility._utility_
)
size()
(in
GenBornRotamerSetInfo
)
set_bIdealLoopClosing()
(in
SlidingWindowLoopClosure
)
set_SSorient()
(in
SS_Info2
)
size()
(in
Hairpins
)
set_big_frag_insertion_weight()
(in
FoldTreeHybridize
)
set_stage1_1_cycles()
(in
FoldTreeHybridize
)
size()
(in
MembraneEmbed
)
set_big_fragments()
(in
MRMover
)
set_stage1_2_cycles()
(in
FoldTreeHybridize
)
size()
(in
OneToAllEnergyContainer
)
set_bin()
(in
GeneralizedKICperturber
)
set_stage1_3_cycles()
(in
FoldTreeHybridize
)
size()
(in
PeptideBondedEnergyContainer
)
set_bin_size()
(in
RNA_ChiStepWiseSampler
)
set_stage1_4_cycles()
(in
FoldTreeHybridize
)
size()
(in
Constraints
)
set_bin_size()
(in
RNA_KIC_Sampler
)
set_stage1_increase_cycles()
(in
HybridizeProtocol
)
size()
(in
MultiConstraint
)
set_bin_size()
(in
RNA_NucleosideStepWiseSampler
)
set_stage1_scorefxn()
(in
HybridizeProtocol
)
size()
(in
ResidueConstraints
)
set_bin_size()
(in
RNA_SuiteStepWiseSampler
)
set_stage2_cycles()
(in
ClassicRelax
)
size()
(in
BasePartner
)
set_bin_width()
(in
Bool3DGrid
)
set_stage2_increase_cycles()
(in
HybridizeProtocol
)
size()
(in
StrandPairing
)
set_bin_width()
(in
ActiveSiteGrid
)
set_stage2_repack_period()
(in
ClassicRelax
)
size()
(in
StrandPairingSet
)
set_binary_rna_output()
(in
RNA_DeNovoProtocol
)
set_stage2_scorefxn()
(in
HybridizeProtocol
)
size()
(in
GenericResidueConnectionData
)
set_binfile_and_load()
(in
InitializeByBins
)
set_stage2min_scorefxn()
(in
HybridizeProtocol
)
size()
(in
LoopCycle
)
set_binfile_and_load()
(in
PerturbByBins
)
set_stage2pack_scorefxn()
(in
HybridizeProtocol
)
size()
(in
LKB_ResiduesInfo
)
set_binname()
(in
GeneralizedKICfilter
)
set_stage3_cycles()
(in
ClassicRelax
)
size()
(in
Xfrag
)
set_binname_i()
(in
BinTransitionData
)
set_stage4_cycles()
(in
ClassicAbinitio
)
size()
(in
RNA_CentroidInfo
)
set_binname_iplus1()
(in
BinTransitionData
)
set_stage4_cycles()
(in
FragmentSampler
)
size()
(in
RNA_FilteredBaseBaseInfo
)
set_binrange_i()
(in
BinTransitionData
)
set_stage4_cycles()
(in
MembraneAbinitio
)
size()
(in
RNA_RawBaseBaseInfo
)
set_binrange_iplus1()
(in
BinTransitionData
)
set_staged_constraints()
(in
RNA_DeNovoProtocol
)
size()
(in
RNA_ScoringInfo
)
set_blueprint()
(in
BluePrintBDR
)
set_standard_stub_atoms()
(in
DownJumpSRFD
)
size()
(in
RNA_DataInfo
)
set_blueprint()
(in
SheetConstraintsRCG
)
set_start()
(in
WorkUnit_LoopHash
)
size()
(in
DistanceHistogram
)
set_blueprint()
(in
SecondaryStructureFilter
)
set_start()
(in
Loop
)
size()
(in
SequenceAlignment
)
set_blueprint()
(in
SetSecStructEnergies
)
set_start()
(in
WorkUnit_LoopHash
)
size()
(in
SequenceProfile
)
set_blueprint()
(in
FlxbbDesign
)
set_start()
(in
RBResidueRange
)
size()
(in
ClusteringTreeNode
)
set_blueprint()
(in
DsspDesignOperation
)
set_start_added_residue_in_aform()
(in
AddMover
)
size()
(in
xyzStripeHash
)
set_boltz_rank()
(in
GenericMonteCarloMover
)
set_start_rep_weight()
(in
ClassicRelax
)
size()
(in
KDPoint
)
set_boltzmann_rotamer_mover()
(in
CoupledMover
)
set_start_res()
(in
LoopHashSampler
)
size()
(in
KDPointList
)
set_boltzmann_temp()
(in
GeneralizedKICselector
)
set_starting_reference_energies()
(in
OptEMultifunc
)
size()
(in
KDTree
)
set_bond_angle()
(in
Conformation
)
set_state_for_node()
(in
DensePDInteractionGraph
)
size()
(in
WeightedSampler
)
set_bond_angle()
(in
SymmetricConformation
)
set_state_for_node()
(in
DoubleDensePDInteractionGraph
)
size()
(in
PairingStatEntry
)
set_bond_angle()
(in
AtomTree
)
set_state_for_node()
(in
DoubleLazyInteractionGraph
)
size()
(in
BackrubSegment
)
set_bond_angle()
(in
ProtectedConformation
)
set_state_for_node()
(in
FASTERInteractionGraph
)
size()
(in
HierarchicalLevel
)
set_bond_length()
(in
Conformation
)
set_state_for_node()
(in
InteractionGraphBase
)
size()
(in
Pool_Evaluator
)
set_bond_length()
(in
SymmetricConformation
)
set_state_for_node()
(in
LazyInteractionGraph
)
size()
(in
Pool_RMSD
)
set_bond_length()
(in
AtomTree
)
set_state_for_node()
(in
LinearMemoryInteractionGraph
)
size()
(in
FileBuffer
)
set_bond_length()
(in
ProtectedConformation
)
set_state_for_node()
(in
PDInteractionGraph
)
size()
(in
Cluster
)
set_bondangle
(in
perturber_effect
)
set_state_for_node()
(in
SymmLinearMemoryInteractionGraph
)
size()
(in
Align_RmsdEvaluator
)
set_bondangle
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
set_state_for_node()
(in
SymmMinimalistInteractionGraph
)
size()
(in
Align_RotamerEvaluator
)
set_bondangle
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
set_state_for_node()
(in
MinimalistFlexbbInteractionGraph
)
size()
(in
AlignmentCluster
)
set_bondlength
(in
perturber_effect
)
set_state_ind_for_this_aa_type()
(in
SparseMatrixIndex
)
size()
(in
AlignmentSet
)
set_bondlength
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
set_statistics_filename()
(in
BackrubSidechainMover
)
size()
(in
CombinedConstraintEvaluator
)
set_bondlength
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
set_stats_cutoff()
(in
AddCDRProfilesOperation
)
size()
(in
ConstraintEvaluator
)
set_boolean_option()
(in
rosetta.basic._basic_
)
set_status()
(in
ABEGO_SS_Map
)
size()
(in
DnaChains
)
set_boolean_option()
(in
rosetta.basic.options._basic_options_
)
set_status_prefix()
(in
Job
)
size()
(in
DockingEnsemble
)
set_boolean_vector_option()
(in
rosetta.basic._basic_
)
set_std_dev()
(in
RotData
)
size()
(in
AlignEvaluator
)
set_boolean_vector_option()
(in
rosetta.basic.options._basic_options_
)
set_stem_optimize()
(in
GraftCDRLoopsProtocol
)
size()
(in
MetaPoseEvaluator
)
set_bootstrap()
(in
RBSegmentRelax
)
set_stem_size()
(in
GraftedStemOptimizer
)
size()
(in
PoseEvaluator
)
set_bounding_box()
(in
Bool3DGrid
)
set_stem_size()
(in
RestrictToCDRsAndNeighbors
)
size()
(in
SingleValuePoseEvaluator_T_double_T
)
set_bounding_box()
(in
BumpGrid
)
set_step_size()
(in
SampleStrategyData
)
size()
(in
SingleValuePoseEvaluator_T_long_int_T
)
set_bounding_box()
(in
HitHasher
)
set_stepwise_modeler()
(in
AddMover
)
size()
(in
SingleValuePoseEvaluator_T_long_unsigned_int_T
)
set_bounding_box()
(in
HitNeighborFinder
)
set_stepwise_modeler()
(in
DeleteMover
)
size()
(in
TimeEvaluator
)
set_bounding_box()
(in
MatchCounter
)
set_stepwise_modeler()
(in
FromScratchMover
)
size()
(in
RNA_SecStructInfo
)
set_bounding_box()
(in
OccupiedSpaceHash
)
set_stop()
(in
Loop
)
size()
(in
HelicalFragment
)
set_bounding_box()
(in
ActiveSiteGrid
)
set_stop_res()
(in
LoopHashSampler
)
size()
(in
FilterCollection
)
set_bps_moves()
(in
RNA_DeNovoProtocol
)
set_store_silents()
(in
CombinePoseMover
)
size()
(in
BB_Pos
)
set_bps_moves()
(in
RNA_StructureParameters
)
set_store_trj()
(in
MDBase
)
size()
(in
BetaAlphaBetaMotifSet
)
set_branch_atom()
(in
GoapRsdType
)
set_strand_dist_cutoff()
(in
SecondaryStructureWeights
)
size()
(in
HSSTripletSet
)
set_bridge_res()
(in
StepWiseProteinPoseSetup
)
set_strand_strand_weights()
(in
EnergyMethodOptions
)
size()
(in
HelixPairingSet
)
set_bridge_res()
(in
StepWiseProteinModelerOptions
)
set_strategy()
(in
CartesianSampler
)
size()
(in
SheetSet
)
set_broker()
(in
TopologyClaimer
)
set_strategy()
(in
SampleStrategyData
)
size()
(in
StrandPairingSet
)
set_buffer_length()
(in
WobbleMover
)
set_stretch_strand_dist_cutoff()
(in
SecondaryStructureWeights
)
size()
(in
BuildManager
)
set_build_all_loops_()
(in
IndependentLoopMover
)
set_strict_looprelax_checks()
(in
Loops
)
size()
(in
VallChunk
)
set_build_attempts_()
(in
IndependentLoopMover
)
set_strict_loops()
(in
IndependentLoopMover
)
size()
(in
VallProvider
)
set_build_ideal_geometry()
(in
GeneralizedKIC
)
set_strict_movemap()
(in
KinematicControl
)
size()
(in
ABEGO_SS_Config
)
set_build_round1_hits_twice()
(in
ClassicMatchAlgorithm
)
set_stride()
(in
SidechainMetropolisHastingsMover
)
size()
(in
AdaptiveScoreHistogram
)
set_bulge_res()
(in
StepWiseProteinPoseSetup
)
set_stride()
(in
TrajectoryReportToDB
)
size()
(in
FragmentScoreMap
)
set_bulge_res()
(in
StepWiseRNA_PoseSetup
)
set_string
(in
rosetta.utility._utility_
)
size()
(in
RMSVallData
)
set_bump_check()
(in
PackerTask
)
set_string_msg()
(in
SimulateMPIMessage
)
size()
(in
SingleResidueTorsionFragmentLibrary
)
set_bump_check()
(in
PackerTask_
)
set_string_option()
(in
rosetta.basic._basic_
)
size()
(in
TorsionFragment
)
set_bump_check()
(in
BoltzmannRotamerMover
)
set_string_option()
(in
rosetta.basic.options._basic_options_
)
size()
(in
TorsionFragmentLibrary
)
set_bump_check()
(in
CoupledMover
)
set_string_vector_option()
(in
rosetta.basic._basic_
)
size()
(in
VallData
)
set_bump_overlap_factor()
(in
ClashBasedRepackShellSelector
)
set_string_vector_option()
(in
rosetta.basic.options._basic_options_
)
size()
(in
HotspotStubSet
)
set_bump_overlap_factor()
(in
KinematicMover
)
set_struct_id1()
(in
RRReporterSQLite
)
size()
(in
TemplateHistory
)
set_bump_tolerance()
(in
Matcher
)
set_struct_ids_from_sql()
(in
DatabaseJobInputter
)
size()
(in
InputterStream
)
set_bundle_parameters()
(in
MakeBundleHelix
)
set_struct_ids_from_strings()
(in
DatabaseJobInputter
)
size()
(in
DisulfPairingLibrary
)
set_bundle_symmetry()
(in
BundleParametersSet
)
set_structure()
(in
RDAT
)
size()
(in
JumpSample
)
set_bundle_symmetry_copies()
(in
BundleParametersSet
)
set_structure_input_tag()
(in
ReportToDB
)
size()
(in
JumpSelector
)
set_bundleparametersset_index()
(in
PerturbBundle
)
set_structure_tag()
(in
ReportToDB
)
size()
(in
JumpSetup
)
set_c_repeat()
(in
FiberDiffractionOptions
)
set_structures()
(in
RDAT
)
size()
(in
PairingLibrary
)
set_ca_only()
(in
SuperimposeMover
)
set_stub_atoms()
(in
DownJumpSRFD
)
size()
(in
ResiduePairJumpSetup
)
set_cacb_dihedral_tolerance()
(in
SheetConstraintsRCG
)
set_stub_transform()
(in
Conformation
)
size()
(in
ChainedSolutionList
)
set_cache_limit()
(in
DbTrajectoryWriter
)
set_stub_transform()
(in
AtomTree
)
size()
(in
BackboneDB
)
set_cache_size()
(in
rosetta.basic.database._basic_database_
)
set_stub_transform()
(in
ProtectedConformation
)
size()
(in
Loop
)
set_cache_size()
(in
UpstreamHitCacher
)
set_subbin_type_i()
(in
BinTransitionData
)
size()
(in
Loops
)
set_cacheable_cluster_data_to_pose()
(in
CDRClusterSet
)
set_subbin_type_iplus1()
(in
BinTransitionData
)
size()
(in
LoopsFileData
)
set_calc_hbond_sasaE()
(in
InterfaceAnalyzerMover
)
set_submotif_frequency()
(in
StepWiseMoveSelector
)
size()
(in
MoverContainer
)
set_calc_rms_res()
(in
StepWiseProteinMinimizer
)
set_submotif_frequency()
(in
StepWiseMonteCarloOptions
)
size()
(in
ConstraintedOptimizationWeightFunc
)
set_calc_rms_res()
(in
StepWiseProteinPoseSetup
)
set_submotif_library()
(in
StepWiseMonteCarlo
)
size()
(in
DDGBindOptEData
)
set_calc_rms_res()
(in
StepWiseWorkingParametersSetup
)
set_submotif_library()
(in
AddOrDeleteMover
)
size()
(in
DDGMutationOptEData
)
set_calc_rms_res()
(in
StepWiseClusterer
)
set_submotif_library()
(in
StepWiseMasterMover
)
size()
(in
DGBindOptEData
)
set_calc_rms_res()
(in
StepWiseLegacyClusterer
)
set_submotif_library()
(in
StepWiseMoveSelector
)
size()
(in
NestedEnergyTermDDGMutationOptEData
)
set_calc_rms_res()
(in
StepWiseLegacyClustererSilentBased
)
set_subunits()
(in
SymmData
)
size()
(in
NestedEnergyTermPNatAAOptEPositionData
)
set_calc_rms_res()
(in
StepWiseBasicWorkingParameters
)
set_sugar()
(in
AllowInsert
)
size()
(in
OptEPositionData
)
set_calculated()
(in
RNA_CentroidInfo
)
set_sugar_domain()
(in
AllowInsert
)
size()
(in
PNatAAOptEPositionData
)
set_calculated()
(in
RNA_FilteredBaseBaseInfo
)
set_suite_cluster_radius()
(in
StepWiseRNA_Clusterer
)
size()
(in
PNatLigPoseOptEData
)
set_calculated()
(in
RNA_RawBaseBaseInfo
)
set_super_secret_fixed_interface_mode()
(in
AnchorMoversData
)
size()
(in
PNatRotOptEPositionData
)
set_calculation_method()
(in
SasaCalc
)
set_superimpose_over_all()
(in
StepWiseJobDistributor
)
size()
(in
PNatStructureOptEData
)
set_calculator_by_name()
(in
RestrictToNeighborhoodOperation
)
set_superimpose_over_all_instantiated()
(in
StepWisePoseAligner
)
size()
(in
PSSMOptEPositionData
)
set_camelid()
(in
GraftCDRLoopsProtocol
)
set_superimpose_res()
(in
StepWiseProteinPoseSetup
)
size()
(in
IterativeVectorExpression
)
set_camelid()
(in
ModelCDRH3
)
set_suppress_bp_constraint()
(in
RNA_DeNovoProtocol
)
size()
(in
TopEntitySet
)
set_camelid()
(in
CDRH3Modeler
)
set_suppress_bp_constraint()
(in
RNA_StructureParameters
)
size()
(in
VariableVectorExpression
)
set_camelid()
(in
GraftMover
)
set_surf()
(in
PoseBalls
)
size()
(in
VectorExpression
)
set_camelid_constraints()
(in
GraftCDRLoopsProtocol
)
set_surface_contact_mover()
(in
FullatomRelaxMover
)
size()
(in
CCluster
)
set_candidates_collector()
(in
FragmentPicker
)
set_surface_esp_to_zero()
(in
ElectrostaticpotentialGrid
)
size()
(in
CClusterSet
)
set_cap_ends()
(in
BackboneGridSampler
)
set_surface_orient_mover()
(in
FullatomRelaxMover
)
size()
(in
PCluster
)
set_careful_base_pair_classifier()
(in
RNA_DMS_LowResolutionPotential
)
set_surface_parameters()
(in
FullatomRelaxMover
)
size()
(in
PClusterSet
)
set_cart_min()
(in
StepWiseProteinModelerOptions
)
set_surface_parameters()
(in
SurfaceOrientMover
)
size()
(in
PlacementAuctionMover
)
set_cartesian()
(in
RTMin
)
set_svn_version_and_url()
(in
rosetta.core._core_
)
size()
(in
ParsedProtocol
)
set_cartesian()
(in
CentroidRelax
)
set_sweep_nonpivot_torsions()
(in
KinematicMover
)
size()
(in
ImplicitFastClashCheck
)
set_cartesian()
(in
RRProtocolRTMin
)
set_sweep_nsteps()
(in
KinematicMover
)
size()
(in
BatchEvaluator
)
set_cartesian()
(in
RRProtocolRelax
)
set_sweep_nsteps()
(in
TorsionSweepingKinematicPerturber
)
size()
(in
BatchNrEvaluator
)
set_cartesian()
(in
CombinePoseMover
)
set_sweep_start_angle()
(in
KinematicMover
)
size()
(in
CamShiftEvaluator
)
set_cartesian()
(in
StepWiseProteinMinimizer
)
set_sweep_start_angle()
(in
TorsionSweepingKinematicPerturber
)
size()
(in
ChiWellRmsdEvaluator
)
set_cartesian_bonded_linear()
(in
EnergyMethodOptions
)
set_sweep_step_size()
(in
KinematicMover
)
size()
(in
ContactMapEvaluator
)
set_cartesian_bonded_parameters()
(in
EnergyMethodOptions
)
set_sweep_step_size()
(in
TorsionSweepingKinematicPerturber
)
size()
(in
ExternalEvaluator
)
set_cartesian_minimize()
(in
NormalModeRelaxMover
)
set_switch_focus_frequency()
(in
StepWiseMoveSelector
)
size()
(in
JScoreEvaluator
)
set_cartfrag_overlap()
(in
CartesianHybridize
)
set_switch_focus_frequency()
(in
StepWiseMonteCarloOptions
)
size()
(in
JumpEvaluator
)
set_catalytic_atoms()
(in
SecondaryMatcherToDownstreamResidue
)
set_sym_dof_names()
(in
SymDofMoverSampler
)
size()
(in
JumpNrEvaluator
)
set_ccd_close()
(in
StepWiseProteinModelerOptions
)
set_symm()
(in
SymmetricMotifFilter
)
size()
(in
LoopRmsdEvaluator
)
set_ccd_close_res()
(in
StepWiseProteinCCD_Closer
)
set_symm_transforms()
(in
SymmData
)
size()
(in
PalesEvaluator
)
set_ccd_close_res()
(in
StepWiseProteinCCD_MultiPoseCloser
)
set_symmdef_file()
(in
MRMover
)
size()
(in
PredictedBurialEvaluator
)
set_CCD_torsions_to_zero()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_symmetric_cenlist()
(in
SymmetricScoreFunction
)
size()
(in
RDC_Evaluator
)
set_cdr()
(in
CDRDihedralConstraintMover
)
set_symmetric_pack()
(in
Interface
)
size()
(in
RmsdEvaluator
)
set_cdr()
(in
AntibodyDesignModeler
)
set_symmetric_residue_neighbors_hbonds()
(in
SymmetricScoreFunction
)
size()
(in
ScoreEvaluator
)
set_cdr()
(in
CDRGraftDesignOptions
)
set_symmetric_sequence()
(in
SetupNCSMover
)
size()
(in
SelectGdtEvaluator
)
set_cdr()
(in
CDRSeqDesignOptions
)
set_symmetry()
(in
MakeBundle
)
size()
(in
SelectMaxsubEvaluator
)
set_CDR_cluster()
(in
AntibodyInfo
)
set_symmetry_copies()
(in
MakeBundle
)
size()
(in
SelectRDC_Evaluator
)
set_cdr_design_options()
(in
AntibodySeqDesignTFCreator
)
set_symmetry_name()
(in
SymmData
)
size()
(in
SelectRmsdEvaluator
)
set_cdr_only()
(in
AntibodyDesignModeler
)
set_symmetry_options_from_tag()
(in
MakeBundle
)
size()
(in
StructuralSimilarityEvaluator
)
set_cdr_only()
(in
MutateFrameworkForCluster
)
set_symmetry_type()
(in
SymmData
)
size()
(in
SymmetricRmsdEvaluator
)
set_cdr_only()
(in
AddCDRProfileSetsOperation
)
set_tag()
(in
VirtualSugarSampler
)
size()
(in
TruncatedScoreEvaluator
)
set_cdr_only()
(in
AddCDRProfilesOperation
)
set_tag()
(in
VirtualSugarSamplerFromStringList
)
size()
(in
ChemicalShiftEvaluator
)
set_cdr_only()
(in
DisableCDRsOperation
)
set_tag_from_pose()
(in
SilentStruct
)
size()
(in
StepWiseClusterer
)
set_cdr_only()
(in
RestrictToCDRsAndNeighbors
)
set_tail_residue_name()
(in
MakeBundleHelix
)
size()
(in
JumpStepWiseSampler
)
set_cdr_override()
(in
AntibodyDesignMover
)
set_takeoff_atom()
(in
LoopScoreInfo
)
size()
(in
NoOpStepWiseSampler
)
set_cdr_range()
(in
AntibodyDesignModeler
)
set_takeoff_domain()
(in
Loop
)
size()
(in
StepWiseSamplerOneTorsion
)
set_cdr_set_options()
(in
AntibodyDesignMover
)
set_takeoff_pos()
(in
Loop
)
size()
(in
StepWiseSamplerOneValue
)
set_cdrs()
(in
AntibodyDesignModeler
)
set_targ_ang()
(in
ResidueVicinityInfo
)
size()
(in
StepWiseSamplerOneValueComb
)
set_cdrs()
(in
MutateFrameworkForCluster
)
set_targ_dih()
(in
ResidueVicinityInfo
)
size()
(in
StepWiseSamplerSized
)
set_cdrs()
(in
AddCDRProfileSetsOperation
)
set_target()
(in
MutateResidue
)
size()
(in
StepWiseSamplerSizedAny
)
set_cdrs()
(in
AddCDRProfilesOperation
)
set_target_function()
(in
PhenixInterface
)
size()
(in
StepWiseSamplerSizedComb
)
set_cdrs()
(in
DisableCDRsOperation
)
set_target_geomcst_id()
(in
SecondaryMatcherToUpstreamResidue
)
size()
(in
CopyDofStepWiseSampler
)
set_cdrs()
(in
RestrictToCDRsAndNeighbors
)
set_target_range()
(in
SuperimposeMover
)
size()
(in
ResidueAlternativeSet
)
set_cdrs_to_use()
(in
CDRClusterFeatures
)
set_target_res()
(in
PocketConstraint
)
size()
(in
ResidueAlternativeStepWiseSampler
)
set_cen_cst_weight()
(in
MRMover
)
set_target_res_pdb()
(in
PocketConstraint
)
size()
(in
ResidueAlternativeStepWiseSamplerComb
)
set_cen_dist()
(in
RotData
)
set_task()
(in
RotamerSets
)
size()
(in
ResidueListStepWiseSampler
)
set_cen_scorefunction()
(in
AnchoredGraftMover
)
set_task()
(in
FlexPacker
)
size()
(in
InputStreamStepWiseSampler
)
set_cen_scorefunction()
(in
CCDEndsGraftMover
)
set_task()
(in
PackerNeighborGraphFilter
)
size()
(in
ProteinBetaAntiParallelStepWiseSampler
)
set_cen_scorefxn()
(in
FloppyTailMover
)
set_task()
(in
SidechainMover
)
size()
(in
ProteinFragmentStepWiseSampler
)
set_cen_scorefxn()
(in
LoopModeler
)
set_task()
(in
SidechainMoverBase
)
size()
(in
ProteinMainChainStepWiseSampler
)
set_cenrot()
(in
CartesianHybridize
)
set_task()
(in
STMStoredTask
)
size()
(in
RigidBodyStepWiseSampler
)
set_censcale()
(in
MRMover
)
set_task_factory()
(in
AnchorMoversData
)
size()
(in
RNA_ChiStepWiseSampler
)
set_center()
(in
MembraneEmbed
)
set_task_factory()
(in
CDRsMinPackMin
)
size()
(in
RNA_KinematicCloser
)
set_center()
(in
DockingInitialPerturbation
)
set_task_factory()
(in
H3RefineCCD
)
size()
(in
RNA_NucleosideStepWiseSampler
)
set_center()
(in
EmbeddingDef
)
set_task_factory()
(in
LHRepulsiveRamp
)
size()
(in
RNA_SugarStepWiseSampler
)
set_centroid()
(in
ImportPoseOptions
)
set_task_factory()
(in
ModelCDRH3
)
size()
(in
RNA_SuiteStepWiseSampler
)
set_centroid()
(in
WorkUnit_bbGauss
)
set_task_factory()
(in
RefineBetaBarrel
)
size()
(in
ClusterBase
)
set_centroid_bin_max()
(in
RigidBodyStepWiseSamplerValueRange
)
set_task_factory()
(in
AntibodyDesignModeler
)
size()
(in
SilentStructStore
)
set_centroid_bin_min()
(in
RigidBodyStepWiseSamplerValueRange
)
set_task_factory()
(in
BackrubSidechainMover
)
size()
(in
WorkUnitQueue
)
set_centroid_bin_size()
(in
RigidBodyStepWiseSamplerValueRange
)
set_task_factory()
(in
DockMCMCycle
)
size()
(in
WorkUnitQueue_Swapped
)
set_centroid_density_weight()
(in
MRMover
)
set_task_factory()
(in
DockingHighRes
)
size()
(in
WUQueue
)
set_centroid_loop_building()
(in
CDRH3Modeler
)
set_task_factory()
(in
DockingHighResLegacy
)
size()
(in
LexicographicalIterator
)
set_centroid_output()
(in
StepWiseProteinModelerOptions
)
set_task_factory()
(in
DockingProtocol
)
size()
(in
heap
)
set_centroid_score_diff_cut()
(in
StepWiseProteinModelerOptions
)
set_task_factory()
(in
FlexPacker
)
size()
(in
LuaObject
)
set_centroid_score_diff_cut()
(in
StepWiseProteinBackboneSampler
)
set_task_factory()
(in
LoopModeler
)
size()
(in
Tag
)
set_centroid_scorefunction()
(in
AnchorMoversData
)
set_task_factory()
(in
RepackingRefiner
)
size1()
(in
SequenceMapping
)
set_centroid_scorefxn()
(in
Protocol
)
set_task_factory()
(in
RotamerTrialsRefiner
)
size1()
(in
StrandPairing
)
set_centroid_scorefxn()
(in
StepWiseProteinBackboneSampler
)
set_task_factory()
(in
LoopMover_Refine_Backrub
)
size2()
(in
SequenceMapping
)
set_centroid_screen()
(in
StepWiseProteinModelerOptions
)
set_task_factory()
(in
LoopMover_Refine_CCD
)
size2()
(in
StrandPairing
)
set_centroid_screen()
(in
StepWiseProteinBackboneSampler
)
set_task_factory()
(in
LoopMover_Refine_KIC
)
size_front()
(in
WUQueue
)
set_centroid_weights()
(in
StepWiseProteinModelerOptions
)
set_task_factory()
(in
LoopRefineInnerCycle
)
size_left()
(in
ABEGO_SS_Pool
)
set_chain()
(in
JointSequenceOperation
)
set_task_factory()
(in
LoopRefineInnerCycleContainer
)
size_left()
(in
QuotaPool
)
set_chain_boundaries()
(in
StepWiseBasicWorkingParameters
)
set_task_factory()
(in
RepackTrial
)
size_left()
(in
SecondaryStructurePool
)
set_chain_strings()
(in
ChainSelector
)
set_task_factory()
(in
ShearMinCCDTrial
)
size_of_query()
(in
FragmentPicker
)
set_chain_to_design()
(in
HotspotStubSet
)
set_task_factory()
(in
SmallMinCCDTrial
)
SIZED
(in
rosetta.protocols.stepwise.sampler
)
set_chainbreak_bias()
(in
RigidBodyMotionMover
)
set_task_factory()
(in
DaemonSet
)
SIZED
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_chainbreak_max()
(in
SlidingWindowLoopClosure
)
set_task_factory()
(in
RelaxProtocolBase
)
SIZED
(in
StepWiseSamplerType
)
set_chainbreak_ramping()
(in
AbscriptStageMover
)
set_task_factory()
(in
BoltzmannRotamerMover
)
SIZED_ANY
(in
rosetta.protocols.stepwise.sampler
)
set_chainbreak_weight()
(in
AnchorMoversData
)
set_task_factory()
(in
GreenPacker
)
SIZED_ANY
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_chainbreak_weight()
(in
RNA_DeNovoProtocol
)
set_task_factory()
(in
SidechainMover
)
SIZED_ANY
(in
StepWiseSamplerType
)
set_chainbreak_weight()
(in
StepWiseMonteCarloOptions
)
set_task_factory()
(in
SidechainMoverBase
)
SIZED_COMB
(in
rosetta.protocols.stepwise.sampler
)
set_chains()
(in
SilentStruct
)
set_task_for_filters()
(in
MatDesGreedyOptMutationMover
)
SIZED_COMB
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_chains()
(in
PDBInfo
)
set_task_for_filters()
(in
MatDesPointMutationCalculator
)
SIZED_COMB
(in
StepWiseSamplerType
)
set_chains()
(in
DeleteChainsMover
)
set_task_scaling()
(in
GenericMonteCarloMover
)
skey()
(in
LuaIterator
)
set_chains_whose_residues_are_separate_chemical_entities()
(in
FileDataOptions
)
set_task_segments()
(in
AtomCoordinateCstMover
)
skip_ala_scan()
(in
RotamerBoltzmannWeight
)
set_change_chi_without_replacing_residue()
(in
SidechainMover
)
set_taskfactory()
(in
BackrubProtocol
)
skip_best_check()
(in
GreedyOptMutationMover
)
set_change_chi_without_replacing_residue()
(in
SidechainMoverBase
)
set_temp()
(in
CanonicalSamplingMover
)
skip_best_check()
(in
ParetoOptMutationMover
)
set_char
(in
rosetta.utility._utility_
)
set_temp()
(in
CartesianSampler
)
skip_best_check()
(in
MatDesGreedyOptMutationMover
)
set_char_msg()
(in
SimulateMPIMessage
)
set_temp_cycles()
(in
LoopProtocol
)
skip_bulge_frequency()
(in
StepWiseMoveSelector
)
set_charged_residues_map()
(in
PBLifetimeCache
)
set_temperature()
(in
SimAnnealerBase
)
skip_bulge_frequency()
(in
StepWiseMonteCarloOptions
)
set_check_if_residues_are_Ctermini()
(in
FileDataOptions
)
set_temperature()
(in
BiasEnergy
)
skip_coord_constraints()
(in
StepWiseProteinModelerOptions
)
set_check_if_residues_are_Ntermini()
(in
FileDataOptions
)
set_temperature()
(in
BiasedMonteCarlo
)
skip_coord_constraints()
(in
StepWiseMonteCarloOptions
)
set_check_ss()
(in
ClassicFragmentMover
)
set_temperature()
(in
ConformerSwitchMover
)
skip_deletions()
(in
StepWiseMonteCarloOptions
)
set_checkpoint_gzip()
(in
GeneticAlgorithm
)
set_temperature()
(in
RNA_DeNovoProtocol
)
skip_minimize()
(in
StepWiseBasicModelerOptions
)
set_checkpoint_gzip()
(in
GeneticAlgorithmBase
)
set_temperature()
(in
CartesianHybridize
)
skip_o2prime_trials()
(in
RNA_Minimizer
)
set_checkpoint_prefix()
(in
GeneticAlgorithm
)
set_temperature()
(in
KinematicMover
)
skip_rate
(in
LoopConfiguration
)
set_checkpoint_prefix()
(in
GeneticAlgorithmBase
)
set_temperature()
(in
MDBase
)
skip_rate
(in
rosetta.protocols.loops._protocols_loops_
)
set_checkpoint_rename()
(in
GeneticAlgorithm
)
set_temperature()
(in
MonteCarlo
)
skip_rate
(in
rosetta.protocols.loops
)
set_checkpoint_rename()
(in
GeneticAlgorithmBase
)
set_temperature()
(in
ReplicaExchangeMC
)
skip_rate
(in
rosetta
)
set_checkpoint_write_interval()
(in
GeneticAlgorithm
)
set_temperature()
(in
RBSegmentRelax
)
skip_rate()
(in
Loop
)
set_checkpoint_write_interval()
(in
GeneticAlgorithmBase
)
set_temperature()
(in
BoltzmannRotamerMover
)
skip_rate()
(in
LoopFromFileData
)
set_chemical_bond_from_upstream_to_downstream()
(in
UpstreamDownstreamCollisionFilter
)
set_temperature()
(in
CoupledMover
)
skip_redundant()
(in
ConstraintPreparer
)
set_chi()
(in
Residue
)
set_temperature()
(in
GenericMonteCarloMover
)
skip_redundant_constraints()
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
set_chi()
(in
MoveMap
)
set_temperature()
(in
RationalMonteCarlo
)
skip_redundant_width()
(in
ConstraintPreparer
)
set_chi()
(in
Pose
)
set_temperature()
(in
PerturbRotamerSidechainMover
)
skip_relax()
(in
VIP_Mover
)
set_chi()
(in
SetupNCSMover
)
set_temperature()
(in
SidechainMCMover
)
skip_set_reasonable_fold_tree()
(in
ImportPoseOptions
)
set_chi_according_to_coordinates()
(in
rosetta.core.conformation._core_conformation_
)
set_temperature()
(in
StepWiseMonteCarloOptions
)
SkipViolFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_chi_mean()
(in
DunbrackRotamerSampleData
)
set_temperature_observer()
(in
MultiTemperatureTrialCounter
)
SkipViolFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_chi_sd()
(in
DunbrackRotamerSampleData
)
set_temperature_ramping()
(in
LoopProtocol
)
SkipViolFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_chi_torsions()
(in
RNA_SilentStruct
)
set_temperature_schedule()
(in
LoopProtocol
)
Slice
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_chi_true_range()
(in
MoveMap
)
set_tempering()
(in
MetropolisHastingsMover
)
slice()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_choices()
(in
DiscreteRandomizer
)
set_template()
(in
ChunkTrialMover
)
slice_out_pose()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_choose_random()
(in
StepWiseBasicModelerOptions
)
set_template()
(in
InsertChunkMover
)
slice_res()
(in
InputStreamWithResidueInfo
)
set_choose_random()
(in
StepWiseProteinCCD_MultiPoseCloser
)
set_templates_to_ignore()
(in
ChunkTrialMover
)
SliceAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_choose_random()
(in
VirtualSugarSampler
)
set_terminal_res()
(in
StepWiseProteinPoseSetup
)
SliceCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_choose_random()
(in
VirtualSugarSamplerFromStringList
)
set_terminal_res()
(in
StepWiseWorkingParametersSetup
)
SlicedPoseWorkingParameters
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_choose_random()
(in
AddOrDeleteMover
)
set_terminal_res()
(in
StepWiseWorkingParameters
)
SlicedPoseWorkingParametersAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_choose_random()
(in
StepWiseMoveSelector
)
set_test_all_moves()
(in
StepWiseMonteCarloOptions
)
SlicedPoseWorkingParametersCAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_chunk_insertion_weight()
(in
FoldTreeHybridize
)
set_tether_jump()
(in
StepWiseRNA_ModelerOptions
)
slide()
(in
UltraLightResidue
)
set_chunk_pdb_files()
(in
RNA_DeNovoProtocol
)
set_tether_jump()
(in
StepWiseMonteCarloOptions
)
slide()
(in
DNABasestep
)
set_chunk_silent_files()
(in
RNA_DeNovoProtocol
)
set_theta()
(in
Residue
)
slide()
(in
SymmetrySlider
)
set_ciBR_only()
(in
FASTERAnnealer
)
set_theta()
(in
Pose
)
slide_away()
(in
SymmetrySlider
)
set_ciBR_only()
(in
FASTER_IG_Repacker
)
set_three_prime_phosphate_res()
(in
MultiPhosphateSampler
)
slide_axis()
(in
SurfaceParameters
)
set_cif_files()
(in
PhenixInterface
)
set_threshold()
(in
GreedyKCenter
)
slide_back_to_origin()
(in
MultipleDomainMover
)
set_clash_check_types()
(in
TargetRotamerCoords
)
set_threshold()
(in
KCluster
)
slide_cutpoint()
(in
FoldTree
)
set_clash_checking()
(in
TargetRotamerCoords
)
set_threshold()
(in
KMedoid
)
slide_into_contact()
(in
SICFast
)
set_close_loops()
(in
RNA_DeNovoProtocol
)
set_thresholds()
(in
SymmetricMotifFilter
)
slide_into_contact()
(in
SetupForSymmetryMover
)
set_close_loops_after_each_move()
(in
RNA_DeNovoProtocol
)
set_throw_on_double_registration()
(in
FallbackConfigurationFactory
)
slide_into_contact_and_score()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
set_closest_states_on_other_bbs()
(in
FlexbbNode
)
set_throw_on_double_registration()
(in
ResourceLoaderFactory
)
slide_into_contact_and_score_DEPRICATED()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
set_closure_attempts()
(in
GeneralizedKIC
)
set_throw_on_double_registration()
(in
ResourceLocatorFactory
)
slide_into_contact_DEPRICATED()
(in
SICFast
)
set_cluster()
(in
BasicCDRClusterSet
)
set_throw_on_double_registration()
(in
ResourceOptionsFactory
)
slide_jump()
(in
FoldTree
)
set_cluster()
(in
KClusterElement
)
set_throw_on_double_registration()
(in
ResidueSelectorFactory
)
slide_jump_randomly()
(in
ResampleMover
)
set_cluster_by_all_atom()
(in
GatherPosesMover
)
set_tmh_inserted()
(in
MembraneTopology
)
slide_score()
(in
SymmetrySlider
)
set_cluster_by_all_atom_rmsd()
(in
StepWiseLegacyClusterer
)
set_tmh_jump()
(in
PairingLibrary
)
SlideCriteriaType
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_cluster_by_all_atom_rmsd()
(in
StepWiseLegacyClustererSilentBased
)
set_to_default()
(in
FastRelax
)
SlideTogether
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_cluster_by_all_atom_rmsd()
(in
StepWiseProteinModelerOptions
)
set_to_origin()
(in
rosetta.protocols.toolbox.rigid_body._protocols_toolbox_rigid_body_
)
SlideTogetherAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_cluster_by_protein_backbone()
(in
GatherPosesMover
)
set_to_quench()
(in
SimAnnealerBase
)
SlideTogetherCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_cluster_csts_data_cutoff()
(in
CDRDihedralConstraintMover
)
set_token_type()
(in
SimpleToken
)
SlideTogetherCreator
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_cluster_csts_use_mean_cst_data()
(in
CDRDihedralConstraintMover
)
set_tolerance()
(in
ClassicRelax
)
SlideTogetherCreatorAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_cluster_csts_use_outlier_data()
(in
CDRDihedralConstraintMover
)
set_tolerated_overlap()
(in
MatchCollisionFilter
)
SlideTogetherCreatorCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_cluster_data()
(in
CDRClusterSet
)
set_tolerated_overlap()
(in
UpstreamCollisionFilter
)
SlideType
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_cluster_num()
(in
RotData
)
set_tolerated_overlap()
(in
UpstreamDownstreamCollisionFilter
)
SlidingWindowLoopClosure
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
set_cluster_radius()
(in
ClusterBase
)
set_top_frag_num()
(in
FragmentIO
)
SlidingWindowLoopClosureAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
set_cluster_radius()
(in
StepWiseRNA_Clusterer
)
set_top_n_big_frag()
(in
FoldTreeHybridize
)
SlidingWindowLoopClosureCAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
set_cluster_radius()
(in
StepWiseLegacyClusterer
)
set_top_n_small_frag()
(in
FoldTreeHybridize
)
slope()
(in
SigmoidFunc
)
set_cluster_radius()
(in
StepWiseLegacyClustererSilentBased
)
set_topology()
(in
FragmentJumpCM
)
slurp()
(in
rosetta.utility._utility_
)
set_cluster_rmsd()
(in
StepWiseBasicOptions
)
set_tor_U1D3_samples()
(in
ExternalGeomSampler
)
SMALL_OVERLAP
(in
rosetta.core.scoring.motif
)
set_clusters()
(in
BasicCDRClusterSet
)
set_tor_U2D2_samples()
(in
ExternalGeomSampler
)
SMALL_OVERLAP
(in
MotifMatchOverlapReq
)
set_combine_long_loop_mode()
(in
StepWiseRNA_ModelerOptions
)
set_tor_U3D1_samples()
(in
ExternalGeomSampler
)
SMALL_OVERLAP
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
set_combine_ratio()
(in
ConstraintEvaluator
)
set_torsion()
(in
Conformation
)
SmallAtNb
(in
rosetta.core.scoring._core_scoring_
)
set_command()
(in
ExternalEvaluator
)
set_torsion()
(in
SymmetricConformation
)
SmallAtNbAP
(in
rosetta.core.scoring._core_scoring_
)
set_comments()
(in
RDAT
)
set_torsion()
(in
BBTorsionSRFD
)
SmallAtNbCAP
(in
rosetta.core.scoring._core_scoring_
)
set_comp_constraint_aa()
(in
AACompositionEnergy
)
set_torsion()
(in
Pose
)
smallest_ring_size()
(in
ResidueType
)
set_comparer_info()
(in
RRReporter
)
set_torsion()
(in
ProtectedConformation
)
SmallFragWeight
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
set_comparer_info()
(in
RRReporterHuman
)
set_torsion()
(in
TorsionFragment
)
SmallFragWeightAP
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
set_comparer_info()
(in
RRReporterSQLite
)
set_torsion_angle()
(in
Conformation
)
SmallFragWeightCAP
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
set_comparer_info()
(in
RRReporterSimple
)
set_torsion_angle()
(in
SymmetricConformation
)
smallmer_from_largemer()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
set_completed()
(in
Job
)
set_torsion_angle()
(in
AtomTree
)
SmallMinCCDTrial
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_compute_interface_delta_hbond_unsat()
(in
InterfaceAnalyzerMover
)
set_torsion_angle()
(in
ProtectedConformation
)
SmallMinCCDTrialAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_compute_interface_energy()
(in
InterfaceAnalyzerMover
)
set_torsion_id()
(in
MC_OneTorsion
)
SmallMinCCDTrialCAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_compute_interface_sc()
(in
InterfaceAnalyzerMover
)
set_torsion_id()
(in
StepWiseSamplerOneTorsion
)
SmallMinCCDTrialCreator
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_compute_packstat()
(in
InterfaceAnalyzerMover
)
set_torsion_id()
(in
RNA_ChiStepWiseSampler
)
SmallMinCCDTrialCreatorAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_compute_packstat()
(in
InterfaceFeatures
)
set_torsion_screen()
(in
RNA_KIC_Sampler
)
SmallMinCCDTrialCreatorCAP
(in
rosetta.protocols.loops.loop_mover.refine._protocols_loops_loop_mover_refine_
)
set_compute_separated_sasa()
(in
InterfaceAnalyzerMover
)
set_torsions()
(in
StepWiseSamplerOneTorsion
)
SmallMol
(in
rosetta.protocols.pockets._protocols_pockets_
)
set_conformational_data()
(in
PBLifetimeCache
)
set_torsions()
(in
RNA_ChiStepWiseSampler
)
SmallMolAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
set_cons_design_data_source()
(in
AddCDRProfilesOperation
)
set_torsions_using()
(in
NormalMode
)
SmallMolCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
set_conserved()
(in
PositionConservedResiduesStore
)
set_total_residue()
(in
SurfaceEnergies
)
SmallMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_constrain_cter()
(in
AntibodyModelerProtocol
)
set_total_residue()
(in
PNatStructureOptEData
)
SmallMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_constrain_dist_only()
(in
SheetConstraintsRCG
)
set_trace()
(in
RDAT
)
SmallMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_constrain_vlvh_qq()
(in
AntibodyModelerProtocol
)
set_traits()
(in
Entity
)
SmallMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_constraint()
(in
MDBase
)
set_traits_size()
(in
Entity
)
SmallMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_constraint_file()
(in
BluePrintBDR
)
set_trans_mag()
(in
LHRepulsiveRamp
)
SmallMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_constraint_file()
(in
FoldTreeHybridize
)
set_trans_magnitude()
(in
DockingHighResLegacy
)
smooth()
(in
TMalign
)
set_constraint_func()
(in
ParatopeEpitopeSiteConstraintMover
)
set_trans_magnitude()
(in
DockingLowRes
)
smooth_fa_elec()
(in
Coulomb
)
set_constraint_func()
(in
ParatopeSiteConstraintMover
)
set_transform()
(in
HomogeneousTransform_T_double_T
)
smooth_fa_elec()
(in
EnergyMethodOptions
)
set_constraint_weight()
(in
FoldConstraints
)
set_translation()
(in
Jump
)
smooth_hb_env_dep()
(in
HBondOptions
)
set_constraint_weight()
(in
DisulfideInsertionMover
)
set_translation()
(in
RT
)
smooth_move_small()
(in
ClassicAbinitio
)
set_constraints()
(in
CstMinimizationData
)
set_translation_magnitude()
(in
CoupledMover
)
smooth_move_small()
(in
MembraneAbinitio
)
set_constraints()
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_translation_matrix()
(in
SymmData
)
smooth_nb()
(in
PoseBalls
)
set_constraints()
(in
ConstraintScoreCutoffFilter
)
set_transparent_facets()
(in
Bool3DGridKinemageWriter
)
smooth_to_zero()
(in
SOGFunc_Impl
)
set_constraints_NtoC()
(in
BluePrintBDR
)
set_turn_off_rna_chem_map_during_optimize()
(in
StepWiseRNA_ModelerOptions
)
SmoothCenPairEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_contents()
(in
FileBuffer
)
set_turnoff_minimization()
(in
CDRsMinPackMin
)
SmoothCenPairEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_context_pose()
(in
OtherContextScoreFunction
)
set_twist()
(in
RotData
)
SmoothCenPairEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_context_update_step()
(in
MDBase
)
set_two_body_energy()
(in
DensePDEdge
)
SmoothCenPairEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_conventional_chains()
(in
FullModelParameters
)
set_two_body_energy()
(in
DoubleDensePDEdge
)
SmoothCenPairEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_conventional_numbering()
(in
FullModelParameters
)
set_two_body_energy()
(in
FASTEREdge
)
SmoothCenPairEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_coord_cst_weight_array()
(in
LoopJumpFoldCst
)
set_two_body_energy()
(in
PDEdge
)
SmoothEnvEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_coordinate_cacher()
(in
PDBWriter
)
set_two_body_energy()
(in
PrecomputedPairEnergiesEdge
)
SmoothEnvEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_coordinate_cacher()
(in
WriteKinemageOutputter
)
set_two_body_energy_for_edge()
(in
PrecomputedPairEnergiesInteractionGraph
)
SmoothEnvEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_coordinates()
(in
BBTorsionSRFD
)
set_two_stage_clustering()
(in
StepWiseRNA_Clusterer
)
SmoothEnvEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_coordinates_for_rotamer()
(in
TargetRotamerCoords
)
set_type()
(in
RNA_Reactivity
)
SmoothEnvEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_coords()
(in
RNA_SilentStruct
)
set_type()
(in
CheckPointer
)
SmoothEnvEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_coords_for_clash_check()
(in
TargetRotamerCoords
)
set_type()
(in
Mover
)
SmoothEnvPairPotential
(in
rosetta.core.scoring._core_scoring_
)
set_copy_DOF()
(in
StepWiseRNA_PoseSetup
)
set_ub_function()
(in
Interpolator
)
SmoothEnvPairPotentialAP
(in
rosetta.core.scoring._core_scoring_
)
set_couplings()
(in
SetRotamerCouplings
)
set_uint
(in
rosetta.utility._utility_
)
SmoothEnvPairPotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
set_create_db()
(in
LoopHashLibrary
)
set_unbound_mode()
(in
AnchorMoversData
)
SmoothFragmentMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_crossover()
(in
CountPairGeneric
)
set_undercount_sugar_rotamers()
(in
StepWiseRNA_CombineLongLoopFilterer
)
SmoothFragmentMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_crystinfo()
(in
PDBInfo
)
set_unfolded_energy_emap_vector()
(in
NestedEnergyTermPNatAAOptEPositionData
)
SmoothFragmentMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_cst_block()
(in
EnzConstraintParameters
)
set_uniform_backrub()
(in
CoupledMover
)
SmoothFragWeight
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
set_cst_cache()
(in
EnzdesCacheableObserver
)
set_uniform_backrub()
(in
ShortBackrubMover
)
SmoothFragWeightAP
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
set_cst_file()
(in
StepWiseProteinPoseSetup
)
set_uniform_euler_angle_bin_width()
(in
HitHasher
)
SmoothFragWeightCAP
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
set_cst_file_name()
(in
SequenceProfileMover
)
set_uniform_euler_angle_bin_width()
(in
HitNeighborFinder
)
SmoothScoreTermCoeffs
(in
rosetta.core.scoring._core_scoring_
)
set_cst_sdev()
(in
NormalModeRelaxMover
)
set_uniform_euler_angle_bin_width()
(in
MatchCounter
)
SmoothScoreTermCoeffsAP
(in
rosetta.core.scoring._core_scoring_
)
set_cst_source()
(in
ConstraintEvaluator
)
set_uniform_euler_angle_bin_width()
(in
OccupiedSpaceHash
)
SmoothScoreTermCoeffsCAP
(in
rosetta.core.scoring._core_scoring_
)
set_cst_weight()
(in
AntibodyModelerProtocol
)
set_uniform_modeler()
(in
MC_Comb
)
SmotifFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_cst_weight()
(in
GraftCDRLoopsProtocol
)
set_uniform_modeler()
(in
MC_OneTorsion
)
SmotifFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_cst_weight()
(in
DockingProtocol
)
set_uniform_modeler()
(in
MC_StepWiseSampler
)
SmotifFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_cst_weight()
(in
RBSegmentRelax
)
set_uniform_modeler()
(in
RNA_MC_MultiSuite
)
SmotifFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_cst_width()
(in
RBSegmentRelax
)
set_uniform_modeler()
(in
RNA_MC_Sugar
)
SmotifFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_cstAtoms()
(in
ResiduePairJump
)
set_uniform_modeler()
(in
RNA_MC_Suite
)
SmotifFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_cstAtoms()
(in
ResiduePairJumpSingle
)
set_uniform_trans()
(in
DockingInitialPerturbation
)
smpi_char
(in
simulate_mpi_message_type
)
set_cstInfo()
(in
ResiduePairJump
)
set_uniform_xyz_bin_width()
(in
HitHasher
)
smpi_char
(in
rosetta.utility._utility_
)
set_cstweight()
(in
WorkUnit_MD
)
set_uniform_xyz_bin_width()
(in
HitNeighborFinder
)
smpi_char
(in
rosetta.utility
)
set_cstweight()
(in
WorkUnit_Relax
)
set_uniform_xyz_bin_width()
(in
MatchCounter
)
smpi_double
(in
simulate_mpi_message_type
)
set_CterInsert()
(in
AntibodyModelerProtocol
)
set_uniform_xyz_bin_width()
(in
OccupiedSpaceHash
)
smpi_double
(in
rosetta.utility._utility_
)
set_current()
(in
SimpleNode
)
set_union()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
smpi_double
(in
rosetta.utility
)
set_current_confnum()
(in
DockingEnsemble
)
set_unselectable()
(in
Bool3DGridKinemageWriter
)
smpi_doubles
(in
simulate_mpi_message_type
)
set_current_cycle()
(in
TrajectoryMapFeatures
)
set_unweighted()
(in
ScoreCutoffFilter
)
smpi_doubles
(in
rosetta.utility._utility_
)
set_current_distance()
(in
LoopScoreInfo
)
set_up_metal_bonds()
(in
ImportPoseOptions
)
smpi_doubles
(in
rosetta.utility
)
set_current_job()
(in
Mover
)
set_up_metal_constraints()
(in
ImportPoseOptions
)
smpi_integer
(in
simulate_mpi_message_type
)
set_current_jump()
(in
SymmetrySlider
)
set_up_peptide_stub_mover()
(in
BackboneGridSampler
)
smpi_integer
(in
rosetta.utility._utility_
)
set_current_no_E_update()
(in
SimpleNode
)
set_up_quota_nnmake_style()
(in
FragmentPicker
)
smpi_integer
(in
rosetta.utility
)
set_current_pose()
(in
MSDMover
)
set_up_ss_abego_quota()
(in
FragmentPicker
)
smpi_integers
(in
simulate_mpi_message_type
)
set_current_tag()
(in
RotamerDumpMover
)
set_update_boinc()
(in
MonteCarlo
)
smpi_integers
(in
rosetta.utility._utility_
)
set_current_tag()
(in
AbrelaxMover
)
set_update_pdb_numbering_mode()
(in
PeptideStubMover
)
smpi_integers
(in
rosetta.utility
)
set_current_tag()
(in
ClassicAbinitio
)
set_upper_connect_atom()
(in
ResidueType
)
smpi_string
(in
simulate_mpi_message_type
)
set_current_tag()
(in
ConstraintFragmentSampler
)
set_upper_threshold()
(in
InterfaceBindingEnergyDensityFilter
)
smpi_string
(in
rosetta.utility._utility_
)
set_current_tag()
(in
DomainAssembly
)
set_upper_value()
(in
PerturbBundleOptions
)
smpi_string
(in
rosetta.utility
)
set_current_tag()
(in
DoubleLayerKinematicAbinitio
)
set_upstream_pose()
(in
Matcher
)
snugdock
(in
rosetta.protocols.antibody
)
set_current_tag()
(in
FoldConstraints
)
set_upstream_pose()
(in
MatcherTask
)
snugfit_MC_min()
(in
AntibodyModeler
)
set_current_tag()
(in
FragmentSampler
)
set_use_big_polar_hydrogen()
(in
SasaCalc
)
snugfit_mcm_protocol()
(in
AntibodyModeler
)
set_current_tag()
(in
JumpingFoldConstraintsWrapper
)
set_use_big_polar_hydrogen()
(in
SasaMethod
)
so3_correlate()
(in
SHT
)
set_current_tag()
(in
KinematicAbinitio
)
set_use_centroid_dG()
(in
InterfaceAnalyzerMover
)
SO3coeffs
(in
rosetta.numeric.fourier._numeric_fourier_
)
set_current_tag()
(in
KinematicTaskControl
)
set_use_cluster_csts()
(in
CDRDihedralConstraintMover
)
SO3coeffsAP
(in
rosetta.numeric.fourier._numeric_fourier_
)
set_current_tag()
(in
LoopJumpFoldCst
)
set_use_cluster_for_H3()
(in
CDRDihedralConstraintMover
)
SO3coeffsCAP
(in
rosetta.numeric.fourier._numeric_fourier_
)
set_current_tag()
(in
MembraneAbinitio
)
set_use_constraints()
(in
AntibodyModelerProtocol
)
SoedingFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
Protocol
)
set_use_constraints()
(in
DockingLowResFilter
)
SoedingFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
ResolutionSwitcher
)
set_use_constraints()
(in
DockingProtocol
)
SoedingFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
AbscriptLoopCloserCM
)
set_use_constraints()
(in
TemperedDocking
)
sog_cst_param()
(in
SOGFunc_Impl
)
set_current_tag()
(in
AbscriptMover
)
set_use_coordinate_constraints()
(in
StepWiseProteinMinimizer
)
SOGFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
AbscriptStageMover
)
set_use_defaults()
(in
PerturbBundleOptions
)
SOGFunc_Impl
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
ConstraintPreparer
)
set_use_degrees()
(in
MakeBundle
)
SOGFunc_ImplAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
FragmentCM
)
set_use_degrees()
(in
PerturbBundle
)
SOGFunc_ImplCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
FragmentJumpCM
)
set_use_ellipsoidal_randomization()
(in
DockingInitialPerturbation
)
SOGFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
RigidChunkCM
)
set_use_epitope_constraints()
(in
AntibodyDesignMover
)
SOGFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
StagePreparer
)
set_use_general_csts_on_cluster_failure()
(in
CDRDihedralConstraintMover
)
sol_weight()
(in
EtableEvaluator
)
set_current_tag()
(in
StructPerturberCM
)
set_use_green_packer()
(in
StepWiseBasicModelerOptions
)
SOLID_STATE_NMR
(in
ExperimentalTechnique
)
set_current_tag()
(in
InterfaceAnalyzerMover
)
set_use_green_packer()
(in
O2PrimePacker
)
SOLID_STATE_NMR
(in
HeaderInformation
)
set_current_tag()
(in
LoopAnalyzerMover
)
set_use_increased_vdw_radii()
(in
CentroidRelax
)
solid_surface
(in
rosetta.core.scoring
)
set_current_tag()
(in
PackStatMover
)
set_use_input_sidechain()
(in
ProteinUpstreamBuilder
)
SOLUTION_NMR
(in
ExperimentalTechnique
)
set_current_tag()
(in
AnchoredDesignMover
)
set_use_jobname()
(in
InterfaceAnalyzerMover
)
SOLUTION_NMR
(in
HeaderInformation
)
set_current_tag()
(in
AnchoredPerturbMover
)
set_use_legacy_protocol()
(in
DockingProtocol
)
solution_pickers
(in
rosetta.protocols.kinematic_closure
)
set_current_tag()
(in
AnchoredRefineMover
)
set_use_light_chain_type()
(in
AddCDRProfileSetsOperation
)
SOLUTION_SCATTERING
(in
ExperimentalTechnique
)
set_current_tag()
(in
AntibodyModelerProtocol
)
set_use_nblist()
(in
Energies
)
SOLUTION_SCATTERING
(in
HeaderInformation
)
set_current_tag()
(in
CDRsMinPackMin
)
set_use_ncaa_rotlib()
(in
ResidueType
)
SOLUTION_SCATTERING_THEORETICAL_MODEL
(in
ExperimentalTechnique
)
set_current_tag()
(in
CloseOneCDRLoop
)
set_use_outliers()
(in
AddCDRProfileSetsOperation
)
SOLUTION_SCATTERING_THEORETICAL_MODEL
(in
HeaderInformation
)
set_current_tag()
(in
GraftCDRLoopsProtocol
)
set_use_outliers()
(in
AddCDRProfilesOperation
)
SolutionPicker
(in
rosetta.protocols.kinematic_closure.solution_pickers._protocols_kinematic_closure_solution_pickers_
)
set_current_tag()
(in
GraftOneCDRLoop
)
set_use_packer_instead_of_rotamer_trials()
(in
StepWisePacker
)
SolutionPickerAP
(in
rosetta.protocols.kinematic_closure.solution_pickers._protocols_kinematic_closure_solution_pickers_
)
set_current_tag()
(in
GraftedStemOptimizer
)
set_use_packer_instead_of_rotamer_trials()
(in
StepWiseBasicOptions
)
SolutionPickerCAP
(in
rosetta.protocols.kinematic_closure.solution_pickers._protocols_kinematic_closure_solution_pickers_
)
set_current_tag()
(in
H3CterInsert
)
set_use_peptoid_rotlib()
(in
ResidueType
)
solv1()
(in
Etable
)
set_current_tag()
(in
H3PerturbCCD
)
set_use_phenix_geo()
(in
StepWiseRNA_PoseSetup
)
solv2()
(in
Etable
)
set_current_tag()
(in
H3RefineCCD
)
set_use_phenix_geo()
(in
StepWiseRNA_ModelerOptions
)
solvation
(in
AtomPairEnergy
)
set_current_tag()
(in
LHRepulsiveRamp
)
set_use_phenix_geo()
(in
VirtualSugarSampler
)
solve()
(in
ClosureProblem
)
set_current_tag()
(in
ModelCDRH3
)
set_use_phenix_geo()
(in
VirtualSugarSamplerFromStringList
)
solve()
(in
NormalMode
)
set_current_tag()
(in
RefineBetaBarrel
)
set_use_phenix_geo()
(in
StepWiseMonteCarloOptions
)
solve_pb()
(in
PoissonBoltzmannPotential
)
set_current_tag()
(in
RefineOneCDRLoop
)
set_use_precomputed_library()
(in
StepWiseMonteCarloOptions
)
solve_sturm()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
set_current_tag()
(in
RefineOneCDRLoopCentroid
)
set_use_rama2b()
(in
CentroidRelax
)
SOLVENT
(in
PtType
)
set_current_tag()
(in
CDRDihedralConstraintMover
)
set_use_relevant_residues_as_loop_length()
(in
LoopAnchorFeatures
)
SOLVENT
(in
ElectrostaticpotentialGrid
)
set_current_tag()
(in
ParatopeEpitopeSiteConstraintMover
)
set_use_resfile()
(in
InterfaceAnalyzerMover
)
SolventAccessibility
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_current_tag()
(in
ParatopeSiteConstraintMover
)
set_use_seqprof_constraints()
(in
ConsensusDesignMover
)
SolventAccessibilityAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_current_tag()
(in
AntibodyDesignMover
)
set_use_single_residue_to_define_anchor_transfrom()
(in
LoopAnchorFeatures
)
SolventAccessibilityCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
set_current_tag()
(in
AntibodyDesignProtocol
)
set_use_stored_energy()
(in
VIP_Mover
)
sort()
(in
LoopHashLibrary
)
set_current_tag()
(in
MutateFrameworkForCluster
)
set_use_symmetry()
(in
SymmetryInfo
)
sort()
(in
LoopHashMap
)
set_current_tag()
(in
AntibodyModeler
)
set_use_tracer()
(in
InterfaceAnalyzerMover
)
sort_by()
(in
AtomTreeDiff
)
set_current_tag()
(in
CDRH3Modeler
)
set_user_csts()
(in
FoldTreeHybridize
)
sort_by()
(in
SilentStructStore
)
set_current_tag()
(in
CloseOneMover
)
set_user_defined_calc_rms_res()
(in
StepWisePoseAligner
)
sort_by_rms_and_energy()
(in
MotifHits
)
set_current_tag()
(in
GraftMover
)
set_user_defined_name()
(in
Filter
)
sort_by_weighted_energy()
(in
HBondSet
)
set_current_tag()
(in
GraftOneMover
)
set_user_defined_name()
(in
DomainInterfaceFilter
)
sort_copy_dofs()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_current_tag()
(in
LoopRlxMover
)
set_user_input_VDW_bin_checker()
(in
StepWiseRNA_Clusterer
)
sort_each_group_by_energy()
(in
ClusterBase
)
set_current_tag()
(in
BackrubMover
)
set_user_input_VDW_bin_checker()
(in
StepWiseConnectionSampler
)
sort_each_group_by_energy()
(in
ClusterBase
)
set_current_tag()
(in
BackrubProtocol
)
set_userpos()
(in
CartesianSampler
)
sort_fill_energies()
(in
VIP_Mover
)
set_current_tag()
(in
BackrubSidechainMover
)
set_using()
(in
GoapRsdType
)
sort_groups_by_energy()
(in
ClusterBase
)
set_current_tag()
(in
CanonicalSamplingMover
)
set_valid()
(in
FragData
)
sort_pair_list()
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_current_tag()
(in
FixedTemperatureController
)
set_valid_energies()
(in
SilentStruct
)
SORT_POOL
(in
rosetta.basic
)
set_current_tag()
(in
MetricRecorder
)
set_vall()
(in
FragmentPicker
)
SORT_POOL
(in
ProfTag
)
set_current_tag()
(in
MetropolisHastingsMover
)
set_vall_torsions_file()
(in
RNA_DeNovoProtocol
)
SORT_POOL
(in
rosetta.basic._basic_
)
set_current_tag()
(in
ParallelTempering
)
set_value()
(in
RNA_Reactivity
)
sort_pose_by_score()
(in
rosetta.core.pose._core_pose_
)
set_current_tag()
(in
ProgressBarObserver
)
set_value()
(in
LiteralExpression
)
sort_R_function()
(in
EItem
)
set_current_tag()
(in
SidechainMetropolisHastingsMover
)
set_value()
(in
VariableExpression
)
sort_relaxed_poses()
(in
VIP_Mover
)
set_current_tag()
(in
SimulatedTempering
)
set_value()
(in
ContingentFilter
)
sort_seq_num_list()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_current_tag()
(in
TemperatureController
)
set_value()
(in
Svm_node_rosetta
)
sort_silent_scores()
(in
SilentStruct
)
set_current_tag()
(in
TemperingBase
)
set_value_for_bin()
(in
Bool3DGrid
)
sorted_values()
(in
KDPointList
)
set_current_tag()
(in
ThermodynamicMover
)
set_values()
(in
StepWiseSamplerOneTorsion
)
source_chain()
(in
AlignChainMover
)
set_current_tag()
(in
ThermodynamicObserver
)
set_values()
(in
StepWiseSamplerOneValue
)
source_file_name()
(in
ABEGO_SS_Config
)
set_current_tag()
(in
TrialCounterObserver
)
set_values()
(in
RNA_ChiStepWiseSampler
)
source_filename()
(in
KClusterData
)
set_current_tag()
(in
AssignToClustersMover
)
set_variant_type()
(in
ResidueProperties
)
source_id_is_mapped()
(in
subset_mapping
)
set_current_tag()
(in
ClusterBase
)
set_vary_bond_geometry()
(in
RNA_DeNovoProtocol
)
source_pose()
(in
RelativeSegmentFilter
)
set_current_tag()
(in
ClusterPhilStyle
)
set_vary_bondangles()
(in
KinematicMover
)
source_pose()
(in
RestrictIdentitiesAtAlignedPositionsOperation
)
set_current_tag()
(in
ClusterPhilStyle_Loop
)
set_vary_ca_bond_angles()
(in
BaseTabooPerturber
)
source_size()
(in
subset_mapping
)
set_current_tag()
(in
ClusterPhilStyle_PoseReporter
)
set_vary_ca_bond_angles()
(in
NeighborDependentTorsionSamplingKinematicPerturber
)
SOUTH
(in
rosetta.core.chemical.rna
)
set_current_tag()
(in
EnsembleConstraints
)
set_vary_ca_bond_angles()
(in
TorsionRestrictedKinematicPerturber
)
SOUTH
(in
PuckerState
)
set_current_tag()
(in
EnsembleConstraints_Simple
)
set_vary_ca_bond_angles()
(in
TorsionSamplingKinematicPerturber
)
SOUTH
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
set_current_tag()
(in
GatherPosesMover
)
set_vary_ca_bond_angles()
(in
VicinitySamplingKinematicPerturber
)
SP
(in
HybridOrbitalType
)
set_current_tag()
(in
CoarseRNA_LoopCloser
)
set_vary_cutpoints()
(in
AnchoredDesignMover
)
SP
(in
GasteigerAtomTypeData
)
set_current_tag()
(in
ExtraThreadingMover
)
set_vary_polar_hydrogen_geometry()
(in
StepWiseBasicOptions
)
SP2
(in
HybridOrbitalType
)
set_current_tag()
(in
LoopRelaxMover
)
set_vary_rna_bond_geometry()
(in
StepWiseBasicOptions
)
SP2
(in
GasteigerAtomTypeData
)
set_current_tag()
(in
LoopRelaxThreadingMover
)
set_vdw_calculation_annotated_sequence()
(in
RNA_ScoringInfo
)
sp2_BAH180_rise()
(in
HBondOptions
)
set_current_tag()
(in
MultiThreadingMover
)
set_VDW_rep_alignment_RMSD_CUTOFF()
(in
StepWiseRNA_ModelerOptions
)
SP2_HYBRID
(in
rosetta
)
set_current_tag()
(in
PartialThreadingMover
)
set_VDW_rep_alignment_RMSD_CUTOFF()
(in
RNA_VDW_BinChecker
)
SP2_HYBRID
(in
rosetta.core.chemical
)
set_current_tag()
(in
RecoverSideChainsMover
)
set_VDW_rep_delete_matching_res()
(in
StepWiseRNA_ModelerOptions
)
SP2_HYBRID
(in
Hybridization
)
set_current_tag()
(in
StealLigandMover
)
set_VDW_rep_delete_matching_res()
(in
RNA_VDW_BinChecker
)
SP2_HYBRID
(in
rosetta.core.chemical._core_chemical_
)
set_current_tag()
(in
StealSideChainsMover
)
set_VDW_rep_screen_info()
(in
StepWiseRNA_Clusterer
)
sp2_outer_width()
(in
HBondOptions
)
set_current_tag()
(in
ThreadingMover
)
set_VDW_rep_screen_info()
(in
StepWiseBasicOptions
)
SP3
(in
HybridOrbitalType
)
set_current_tag()
(in
ContactMap
)
set_VDW_rep_screen_physical_pose_clash_dist_cutoff()
(in
StepWiseRNA_ModelerOptions
)
SP3
(in
GasteigerAtomTypeData
)
set_current_tag()
(in
FitBfactorsMover
)
set_VDW_weight()
(in
AnchorMoversData
)
SP3_HYBRID
(in
rosetta
)
set_current_tag()
(in
LoadDensityMapMover
)
set_vector_b()
(in
SVD_Solver
)
SP3_HYBRID
(in
rosetta.core.chemical
)
set_current_tag()
(in
RecomputeDensityMapMover
)
set_vector_exclude_residues()
(in
PCS_Energy_parameters_manager
)
SP3_HYBRID
(in
Hybridization
)
set_current_tag()
(in
SetCrystWeightMover
)
set_vector_exclude_residues()
(in
PCS_Energy_parameters_manager_Ts1
)
SP3_HYBRID
(in
rosetta.core.chemical._core_chemical_
)
set_current_tag()
(in
SetRefinementOptionsMover
)
set_vector_exclude_residues()
(in
PCS_Energy_parameters_manager_Ts2
)
sp_parse_taskdef()
(in
rosetta.protocols.elscripts._protocols_elscripts_
)
set_current_tag()
(in
TagPoseWithRefinementStatsMover
)
set_vector_exclude_residues()
(in
PCS_Energy_parameters_manager_Ts3
)
spacegroup()
(in
CrystInfo
)
set_current_tag()
(in
UpdateSolventMover
)
set_vector_exclude_residues()
(in
PCS_Energy_parameters_manager_Ts4
)
spacing()
(in
PocketGrid
)
set_current_tag()
(in
CreateAngleConstraint
)
set_vector_name_and_weight()
(in
PCS_Energy_parameters_manager
)
spairs_from_foldtype()
(in
SheetFoldTypeManager
)
set_current_tag()
(in
CreateDistanceConstraint
)
set_vector_name_and_weight()
(in
PcsEnergyParameter
)
spairset()
(in
SheetSet
)
set_current_tag()
(in
CreateTorsionConstraint
)
set_vector_name_and_weight()
(in
PCS_Energy_parameters_manager_Ts1
)
Span
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
DeclareBond
)
set_vector_name_and_weight()
(in
PCS_Energy_parameters_manager_Ts2
)
span()
(in
SpanningTopology
)
set_current_tag()
(in
PeptideStubMover
)
set_vector_name_and_weight()
(in
PCS_Energy_parameters_manager_Ts3
)
span_begin()
(in
MembraneTopology
)
set_current_tag()
(in
ddGMover
)
set_vector_name_and_weight()
(in
PCS_Energy_parameters_manager_Ts4
)
span_end()
(in
MembraneTopology
)
set_current_tag()
(in
GreedyOptMutationMover
)
set_verbose()
(in
SilentFileData
)
span_file()
(in
MembraneTopology
)
set_current_tag()
(in
ParetoOptMutationMover
)
set_verbose()
(in
RNA_TorsionPotential
)
SpanAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
DesignProteinBackboneAroundDNA
)
set_verbose()
(in
RNA_LoopCloser
)
SpanCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
DnaInterfaceMinMover
)
set_verbose()
(in
RNA_Minimizer
)
spanfile()
(in
AddMembraneMover
)
set_current_tag()
(in
DnaInterfaceMultiStateDesign
)
set_verbose()
(in
LayerDesignOperation
)
spanfile_name()
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
DnaInterfacePacker
)
set_verbose()
(in
CCDLoopClosureMover
)
spanfile_names()
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
SeparateDnaFromNonDna
)
set_verbose()
(in
SequenceShiftMover
)
SpanFileLoader
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
ConformerSwitchMover
)
set_verbose()
(in
ScoreMover
)
SpanFileLoaderAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockMCMCycle
)
set_verbose()
(in
StepWiseSampleAndScreen
)
SpanFileLoaderCAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockMCMProtocol
)
set_verbose()
(in
StepWiseRNA_Clusterer
)
SpanFileLoaderCreator
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockMinMover
)
set_verbose()
(in
StepWiseRNA_PoseSetup
)
SpanFileLoaderCreatorAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockSetupMover
)
set_verbose()
(in
StepWiseBasicModelerOptions
)
SpanFileLoaderCreatorCAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockingEnsemblePrepackProtocol
)
set_verbose()
(in
RNA_KIC_Sampler
)
SpanFileOptions
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockingHighRes
)
set_verbose()
(in
RNA_KinematicCloser
)
SpanFileOptionsAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockingHighResLegacy
)
set_verbose_scores()
(in
StepWiseMonteCarloOptions
)
SpanFileOptionsCAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockingInitialPerturbation
)
set_version()
(in
RDAT
)
SpanFileOptionsCreator
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockingLowRes
)
set_vertex_member_of_group()
(in
InteractionGraphBase
)
SpanFileOptionsCreatorAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockingLowResEnsemble
)
set_vicinity_degree()
(in
AnchoredRefineMover
)
SpanFileOptionsCreatorCAP
(in
rosetta.protocols.membrane.io._protocols_membrane_io_
)
set_current_tag()
(in
DockingPrepackProtocol
)
set_vicinity_sampling()
(in
AnchoredRefineMover
)
spanning()
(in
SpanningTopology
)
set_current_tag()
(in
DockingProtocol
)
set_view()
(in
SymDockProtocol
)
spanning()
(in
MembraneEmbed
)
set_current_tag()
(in
DockingSlideIntoContact
)
set_virtual_res()
(in
StepWiseProteinPoseSetup
)
spanning_topology()
(in
MembraneInfo
)
set_current_tag()
(in
EllipsoidalRandomizationMover
)
set_virtual_res()
(in
StepWiseRNA_PoseSetup
)
SpanningTopology
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
FaDockingSlideIntoContact
)
set_virtual_sugar_do_minimize()
(in
StepWiseRNA_ModelerOptions
)
SpanningTopologyAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
InterfaceSidechainMinMover
)
set_virtual_sugar_do_minimize()
(in
StepWiseMonteCarloOptions
)
SpanningTopologyCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
set_current_tag()
(in
SidechainMinMover
)
set_virtual_sugar_do_screens()
(in
StepWiseRNA_ModelerOptions
)
SparseMatrixIndex
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_current_tag()
(in
TemperedDocking
)
set_virtual_sugar_is_from_prior_step()
(in
VirtualSugarSampler
)
SparseMatrixIndexAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_current_tag()
(in
MPDockingMover
)
set_virtual_sugar_keep_base_fixed()
(in
StepWiseRNA_ModelerOptions
)
SparseMatrixIndexCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_current_tag()
(in
MPDockingSetupMover
)
set_virtual_sugar_keep_base_fixed()
(in
StepWiseMonteCarloOptions
)
sparta
(in
rosetta.protocols
)
set_current_tag()
(in
SaneDockingProtocol
)
set_virtual_sugar_legacy_mode()
(in
StepWiseRNA_ModelerOptions
)
Sparta
(in
rosetta.protocols.sparta._protocols_sparta_
)
set_current_tag()
(in
AddAssemblyConstraints
)
set_virtualize_packable_moieties_in_screening_pose()
(in
StepWiseBasicModelerOptions
)
SpartaAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
set_current_tag()
(in
AssembleLinkerMover
)
set_virtualize_packable_moieties_in_screening_pose()
(in
StepWiseMonteCarloOptions
)
SpartaCAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
set_current_tag()
(in
CombineChainsMover
)
set_visited()
(in
ClusteringTreeNode
)
SPECIAL_ROT
(in
rosetta
)
set_current_tag()
(in
PostDockAssemblyScorer
)
set_visited()
(in
SmallMol
)
SPECIAL_ROT
(in
rosetta.core.chemical
)
set_current_tag()
(in
BfactorFittingMover
)
set_vlb()
(in
RemodelConstraintGenerator
)
SPECIAL_ROT
(in
rosetta.core.chemical._core_chemical_
)
set_current_tag()
(in
DensityMorphingMover
)
set_wdw_to_freeze()
(in
FragmentBiasAssigner
)
SPECIAL_ROT
(in
VariantType
)
set_current_tag()
(in
ReportFSC
)
set_weak_pointer_to_self()
(in
AtomTree
)
special_rot
(in
ScoreType
)
set_current_tag()
(in
ScaleMapIntensities
)
set_weight()
(in
CSA
)
special_rot
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
SetupForDensityScoringMover
)
set_weight()
(in
DC
)
special_rot
(in
rosetta.core.scoring
)
set_current_tag()
(in
ClientMover
)
set_weight()
(in
ScoreFunction
)
special_rot
(in
rosetta
)
set_current_tag()
(in
CoMTrackerCM
)
set_weight()
(in
RNA_Datum
)
SPECIAL_SEGMENTS_OBSERVER
(in
Enum
)
set_current_tag()
(in
EnvMover
)
set_weight()
(in
WeightedSampler
)
SPECIAL_SEGMENTS_OBSERVER
(in
CacheableObserverType
)
set_current_tag()
(in
ScriptCM
)
set_weight()
(in
PairingStatEntry
)
specialized_commands_exist_for_residue()
(in
ResfileContents
)
set_current_tag()
(in
MultipleDomainMover
)
set_weight()
(in
SheetConstraintsRCG
)
SpecialRotamerEnergy
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_current_tag()
(in
RNA_DeNovoProtocol
)
set_weight()
(in
EvaluatedArchive
)
SpecialRotamerEnergyAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_current_tag()
(in
RNA_FragmentMover
)
set_weight()
(in
FavorSequenceProfile
)
SpecialRotamerEnergyCAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_current_tag()
(in
RNA_LoopCloser
)
set_weight()
(in
SetupNCSMover
)
SpecialRotamerEnergyCreator
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_current_tag()
(in
RNA_Minimizer
)
set_weight_constraints_NtoC()
(in
FlxbbDesign
)
SpecialRotamerEnergyCreatorAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_current_tag()
(in
RNA_Relaxer
)
set_weight_constraints_sheet()
(in
FlxbbDesign
)
SpecialRotamerEnergyCreatorCAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
set_current_tag()
(in
ReportToDB
)
set_weight_if_zero()
(in
ScoreFunction
)
SpecialRotamerRSO
(in
rosetta.protocols.toolbox.rotamer_set_operations._protocols_toolbox_rotamer_set_operations_
)
set_current_tag()
(in
TrajectoryReportToDB
)
set_weights()
(in
EtableEvaluator
)
SpecialRotamerRSOAP
(in
rosetta.protocols.toolbox.rotamer_set_operations._protocols_toolbox_rotamer_set_operations_
)
set_current_tag()
(in
SetupForFibrilMover
)
set_weights()
(in
EvaluatedArchive
)
SpecialRotamerRSOCAP
(in
rosetta.protocols.toolbox.rotamer_set_operations._protocols_toolbox_rotamer_set_operations_
)
set_current_tag()
(in
BluePrintBDR
)
set_weights()
(in
SymmetricMotifFilter
)
SpecialSegmentsObserver
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
set_current_tag()
(in
CircularPermutation
)
set_weights()
(in
StepWiseSamplerAny
)
SpecialSegmentsObserverAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
set_current_tag()
(in
MatchResiduesMover
)
set_weights()
(in
DecoySetEvaluation
)
SpecialSegmentsObserverCAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
set_current_tag()
(in
SheetConstraintsRCG
)
set_well_depth()
(in
LinearPenaltyFunction
)
SpecificGeometryLibrary
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
SetAACompositionPotential
)
set_width()
(in
FragmentScoreManager
)
SpecificGeometryLibraryAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
SetSecStructEnergies
)
set_working_best_alignment()
(in
StepWiseWorkingParameters
)
SpecificGeometryLibraryCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
FlexPacker
)
set_working_bridge_res()
(in
StepWiseWorkingParameters
)
SpecificResiduesNearInterfaceFilter
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FlexPepDockingAbInitio
)
set_working_calc_rms_res()
(in
StepWiseBasicWorkingParameters
)
SpecificResiduesNearInterfaceFilterAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FlexPepDockingLowRes
)
set_working_fixed_res()
(in
StepWiseBasicWorkingParameters
)
SpecificResiduesNearInterfaceFilterCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FlexPepDockingProtocol
)
set_working_minimize_res()
(in
StepWiseModeler
)
SpecificResiduesNearInterfaceFilterCreator
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FloppyTailMover
)
set_working_moving_partition_res()
(in
StepWiseBasicWorkingParameters
)
SpecificResiduesNearInterfaceFilterCreatorAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FlxbbDesign
)
set_working_moving_res_list()
(in
StepWiseProteinCCD_Closer
)
SpecificResiduesNearInterfaceFilterCreatorCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FlxbbDesignPack
)
set_working_moving_res_list()
(in
StepWiseProteinCCD_MultiPoseCloser
)
sph_standardize()
(in
SHT
)
set_current_tag()
(in
InterlockAroma
)
set_working_moving_res_list()
(in
StepWiseBasicWorkingParameters
)
Sphere
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_current_tag()
(in
BDR
)
set_working_native_alignment()
(in
StepWiseWorkingParameters
)
sphere()
(in
CavityBall
)
set_current_tag()
(in
VarLengthBuild
)
set_working_native_pose()
(in
StepWiseBasicWorkingParameters
)
SphereAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_current_tag()
(in
RemodelConstraintGenerator
)
set_working_pack_res()
(in
StepWiseMinimizer
)
SphereCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
set_current_tag()
(in
NonlocalFrags
)
set_working_pack_res()
(in
StepWiseMasterPacker
)
spherical()
(in
Stub
)
set_current_tag()
(in
TorsionFragmentMover
)
set_working_pack_res()
(in
StepWisePacker
)
spherical()
(in
rosetta.protocols.fldsgn.potentials.sspot._protocols_fldsgn_potentials_sspot_
)
set_current_tag()
(in
GeneralizedKIC
)
set_working_parameters()
(in
StepWiseRNA_Clusterer
)
spherical_coor_triplet
(in
rosetta.protocols.pockets._protocols_pockets_
)
set_current_tag()
(in
AnchoredGraftMover
)
set_working_parameters()
(in
StepWiseModeler
)
spherical_coor_tripletAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
set_current_tag()
(in
CCDEndsGraftMover
)
set_working_parameters_exist()
(in
StepWiseRNA_Clusterer
)
spherical_coor_tripletCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
set_current_tag()
(in
GraftMoverBase
)
set_working_prepack_res()
(in
StepWiseModeler
)
SphericalRotationSearchPattern
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_current_tag()
(in
DeleteRegionMover
)
set_working_superimpose_res()
(in
StepWiseWorkingParameters
)
SphericalRotationSearchPatternAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_current_tag()
(in
InsertPoseIntoPoseMover
)
set_wrapping_optE_multifunc()
(in
WrappedOptEExpressionCreator
)
SphericalRotationSearchPatternCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_current_tag()
(in
KeepRegionMover
)
set_write_dynamic_rsr()
(in
MDBase
)
spin_axis()
(in
RigidBodySpinMover
)
set_current_tag()
(in
ReplaceRegionMover
)
set_write_empty_voxels()
(in
Bool3DGridKinemageWriter
)
spin_down
(in
DaemonSetMessage
)
set_current_tag()
(in
BackboneGridSampler
)
set_write_facets()
(in
Bool3DGridKinemageWriter
)
spin_down
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_current_tag()
(in
BundleGridSampler
)
set_write_no_structures()
(in
SilentFileJobOutputter
)
spin_down
(in
rosetta.protocols.pack_daemon
)
set_current_tag()
(in
FitSimpleHelix
)
set_write_pdb_link_records()
(in
FileDataOptions
)
SpinMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_current_tag()
(in
MakeBundle
)
set_write_pdb_parametric_info()
(in
FileDataOptions
)
SpinMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_current_tag()
(in
MakeBundleHelix
)
set_write_separate_scorefile()
(in
SilentFileJobOutputter
)
SpinMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_current_tag()
(in
PerturbBundle
)
set_wt_aa()
(in
DDGMutationOptEData
)
SpinMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_current_tag()
(in
PerturbBundleHelix
)
set_wt_unfolded_energies_emap()
(in
NestedEnergyTermDDGMutationOptEData
)
SpinMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_current_tag()
(in
BackboneTorsionPerturbation
)
set_wu_type()
(in
WorkUnitBase
)
SpinMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_current_tag()
(in
BackboneTorsionSampler
)
set_x_middle()
(in
LinearPenaltyFunction
)
spline
(in
rosetta.numeric.interpolation
)
set_current_tag()
(in
CartesianHybridize
)
set_x_values()
(in
RigidBodyStepWiseSampler
)
spline_coeffs()
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
set_current_tag()
(in
CartesianSampler
)
set_x_values()
(in
RigidBodyStepWiseSamplerValueRange
)
spline_from_file()
(in
rosetta.numeric.interpolation._numeric_interpolation_
)
set_current_tag()
(in
ChunkTrialMover
)
set_xaxis_rotation_deg()
(in
HomogeneousTransform_T_double_T
)
spline_interpolate()
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
set_current_tag()
(in
DomainAssembly
)
set_xaxis_rotation_rad()
(in
HomogeneousTransform_T_double_T
)
spline_second_derivative()
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
set_current_tag()
(in
FoldTreeHybridize
)
set_xsel()
(in
RDAT
)
SplineFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
HybridizeProtocol
)
set_xsel_refine()
(in
RDAT
)
SplineFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
InsertChunkMover
)
set_xyz()
(in
Conformation
)
SplineFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
MRMover
)
set_xyz()
(in
Residue
)
SplineGenerator
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
set_current_tag()
(in
WeightedFragmentSmoothTrialMover
)
set_xyz()
(in
SymmetricConformation
)
SplineGeneratorAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
set_current_tag()
(in
WeightedFragmentTrialMover
)
set_xyz()
(in
AtomTree
)
SplineGeneratorCAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
set_current_tag()
(in
IdealizeMover
)
set_xyz()
(in
Pose
)
SplineParameters
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
set_current_tag()
(in
BalancedKicMover
)
set_xyz()
(in
ProtectedConformation
)
SplineParametersAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
set_current_tag()
(in
KicMover
)
set_xyz_bin_widths()
(in
HitHasher
)
SplineParametersCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
set_current_tag()
(in
AddHydrogen
)
set_xyz_bin_widths()
(in
HitNeighborFinder
)
split()
(in
DDomainParse
)
set_current_tag()
(in
AddHydrogens
)
set_xyz_bin_widths()
(in
MatchCounter
)
split()
(in
rosetta.protocols.sparta._protocols_sparta_
)
set_current_tag()
(in
CompoundTranslate
)
set_xyz_bin_widths()
(in
OccupiedSpaceHash
)
split()
(in
rosetta.utility._utility_
)
set_current_tag()
(in
ComputeLigandRDF
)
set_xyz_target()
(in
LocalCoordinateConstraint
)
split_axis()
(in
KDNode
)
set_current_tag()
(in
FinalMinimizer
)
set_y_values()
(in
RigidBodyStepWiseSampler
)
split_by_ca_ca_dist()
(in
rosetta.protocols.loops._protocols_loops_
)
set_current_tag()
(in
GrowLigand
)
set_y_values()
(in
RigidBodyStepWiseSamplerValueRange
)
split_by_chain()
(in
Pose
)
set_current_tag()
(in
HighResDocker
)
set_yaxis_rotation_deg()
(in
HomogeneousTransform_T_double_T
)
split_by_resSeq()
(in
rosetta.protocols.loops._protocols_loops_
)
set_current_tag()
(in
InterfaceScoreCalculator
)
set_yaxis_rotation_rad()
(in
HomogeneousTransform_T_double_T
)
split_chains()
(in
CircularPermutation
)
set_current_tag()
(in
LigandDesign
)
set_z()
(in
EulerAngles
)
split_pose()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_current_tag()
(in
MinimizeBackbone
)
set_z0_offset()
(in
MakeBundleHelix
)
split_to_list()
(in
rosetta.utility._utility_
)
set_current_tag()
(in
MinimizeLigand
)
set_z0_offset()
(in
BundleParameters
)
split_to_set()
(in
rosetta.utility._utility_
)
set_current_tag()
(in
RandomConformerMover
)
set_z1()
(in
MakeBundleHelix
)
split_topology_by_jump()
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
set_current_tag()
(in
RandomConformers
)
set_z1()
(in
BundleParameters
)
split_up_remark_line()
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
set_current_tag()
(in
RigidSearchMover
)
set_z1_offset()
(in
MakeBundleHelix
)
split_WhiteSpace()
(in
rosetta.protocols.sparta._protocols_sparta_
)
set_current_tag()
(in
Rotate
)
set_z1_offset()
(in
BundleParameters
)
split_whitespace()
(in
rosetta.utility._utility_
)
set_current_tag()
(in
Rotates
)
set_z_values()
(in
RigidBodyStepWiseSampler
)
sq_vec_distance()
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
set_current_tag()
(in
SlideTogether
)
set_z_values()
(in
RigidBodyStepWiseSamplerValueRange
)
sql_database
(in
rosetta.utility
)
set_current_tag()
(in
StartFrom
)
set_zaxis_rotation_deg()
(in
HomogeneousTransform_T_double_T
)
sqlite3
(in
e
)
set_current_tag()
(in
TetherLigand
)
set_zaxis_rotation_rad()
(in
HomogeneousTransform_T_double_T
)
sqlite3
(in
DatabaseMode
)
set_current_tag()
(in
Transform
)
set_zero_prob_weight_at()
(in
AntibodySeqDesignTFCreator
)
sqr()
(in
BicubicSpline
)
set_current_tag()
(in
Translate
)
set_zeta()
(in
Pose
)
sqr()
(in
CubicSpline
)
set_current_tag()
(in
UnconstrainedTorsionsMover
)
SetAACompositionPotential
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
sqr()
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
set_current_tag()
(in
WriteLigandMolFile
)
SetAACompositionPotentialAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
square_distance()
(in
EnergyEdge
)
set_current_tag()
(in
LoopBuildMover
)
SetAACompositionPotentialCAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
SquarerootExpression
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
set_current_tag()
(in
LoopmodelWrapper
)
SetAACompositionPotentialCreator
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
SquarerootExpressionAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
set_current_tag()
(in
LoopBuilder
)
SetAACompositionPotentialCreatorAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
SquarerootExpressionCAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
set_current_tag()
(in
LoopModeler
)
SetAACompositionPotentialCreatorCAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
SquareWell2Func
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
LoopMover
)
setAlgorithm()
(in
PhenixInterface
)
SquareWell2FuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
LoopProtocol
)
setall()
(in
TemplateHistory
)
SquareWell2FuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
MinimizationRefiner
)
SetAtomicCharge
(in
rosetta.core.chemical._core_chemical_
)
SquareWellFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
RepackingRefiner
)
SetAtomicChargeAP
(in
rosetta.core.chemical._core_chemical_
)
SquareWellFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
RotamerTrialsRefiner
)
SetAtomicChargeCAP
(in
rosetta.core.chemical._core_chemical_
)
SquareWellFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_current_tag()
(in
LegacyKicSampler
)
SetAtomTree
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
src()
(in
SimulateMPIMessage
)
set_current_tag()
(in
AcceptanceCheck
)
SetAtomTreeAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
src_pose()
(in
InsertPoseIntoPoseMover
)
set_current_tag()
(in
LoopFilter
)
SetAtomTreeCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
src_pose()
(in
ReplaceRegionMover
)
set_current_tag()
(in
LoopMoverGroup
)
SetAtomTreeCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
src_pose_start()
(in
ReplaceRegionMover
)
set_current_tag()
(in
PrepareForCentroid
)
SetAtomTreeCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
SRI
(in
rosetta
)
set_current_tag()
(in
PrepareForFullatom
)
SetAtomTreeCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
SRI
(in
rosetta.core.chemical
)
set_current_tag()
(in
FastGapMover
)
SetAtomType
(in
rosetta.core.chemical._core_chemical_
)
SRI
(in
ResidueProperty
)
set_current_tag()
(in
LoopHashDiversifier
)
SetAtomTypeAP
(in
rosetta.core.chemical._core_chemical_
)
SRI
(in
rosetta.core.chemical._core_chemical_
)
set_current_tag()
(in
LoopHashLibrary
)
SetAtomTypeCAP
(in
rosetta.core.chemical._core_chemical_
)
ss()
(in
VallResidue
)
set_current_tag()
(in
LoopHashMoverWrapper
)
SetBackboneHeavyatom
(in
rosetta.core.chemical._core_chemical_
)
ss()
(in
Xfres
)
set_current_tag()
(in
LoopHashRelaxProtocol
)
SetBackboneHeavyatomAP
(in
rosetta.core.chemical._core_chemical_
)
ss()
(in
GrowLeft
)
set_current_tag()
(in
Mover_LoopHashRefine
)
SetBackboneHeavyatomCAP
(in
rosetta.core.chemical._core_chemical_
)
ss()
(in
GrowRight
)
set_current_tag()
(in
FoldTreeFromLoops
)
SetChiMover
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
ss()
(in
SegmentRebuild
)
set_current_tag()
(in
CCDLoopClosureMover
)
SetChiMoverAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
ss()
(in
VallResidue
)
set_current_tag()
(in
FASelectSlidingWindowLoopClosure
)
SetChiMoverCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
ss1()
(in
ResPairMotif
)
set_current_tag()
(in
SlidingWindowLoopClosure
)
SetChiMoverCreator
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
ss2()
(in
ResPairMotif
)
set_current_tag()
(in
WidthFirstSlidingWindowLoopClosure
)
SetChiMoverCreatorAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
SS_Base
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_current_tag()
(in
KinematicMover
)
SetChiMoverCreatorCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
SS_BaseAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_current_tag()
(in
KinematicWrapper
)
SetCrystWeightMover
(in
rosetta.protocols.cryst._protocols_cryst_
)
SS_BaseCAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_current_tag()
(in
LoopCM
)
SetCrystWeightMoverAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
ss_dist()
(in
HSSTriplet
)
set_current_tag()
(in
LoopRefineInnerCycle
)
SetCrystWeightMoverCAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
ss_element_id()
(in
SS_Info2
)
set_current_tag()
(in
LoopRefineInnerCycleContainer
)
SetCrystWeightMoverCreator
(in
rosetta.protocols.cryst._protocols_cryst_
)
ss_from_blueprint()
(in
BluePrintBDR
)
set_current_tag()
(in
RepackTrial
)
SetCrystWeightMoverCreatorAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
ss_from_blueprint()
(in
SetSecStructEnergies
)
set_current_tag()
(in
ShearMinCCDTrial
)
SetCrystWeightMoverCreatorCAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
ss_index()
(in
rosetta.protocols.frag_picker.quota._protocols_frag_picker_quota_
)
set_current_tag()
(in
SmallMinCCDTrial
)
setData()
(in
GDB
)
SS_INFO
(in
Enum
)
set_current_tag()
(in
MakeRotLibMover
)
setDefaultAnchors()
(in
FlexPepDockingFlags
)
SS_INFO
(in
CacheableDataType
)
set_current_tag()
(in
MatcherMover
)
setEntry()
(in
GDB
)
SS_Info
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
ExtractSubposeMover
)
SetFormalCharge
(in
rosetta.core.chemical._core_chemical_
)
SS_Info2
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_current_tag()
(in
MatDesGreedyOptMutationMover
)
SetFormalChargeAP
(in
rosetta.core.chemical._core_chemical_
)
SS_Info2AP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_current_tag()
(in
SchemePlaceMotifsMover
)
SetFormalChargeCAP
(in
rosetta.core.chemical._core_chemical_
)
SS_Info2CAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_current_tag()
(in
SymDofMover
)
SetICoor
(in
rosetta.core.chemical._core_chemical_
)
SS_InfoAP
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
CartesianMD
)
SetICoorAP
(in
rosetta.core.chemical._core_chemical_
)
SS_InfoCAP
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
MDBase
)
SetICoorCAP
(in
rosetta.core.chemical._core_chemical_
)
SS_KILLHAIRPINS_INFO
(in
Enum
)
set_current_tag()
(in
MedalExchangeMover
)
SetIGTypeOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
SS_KILLHAIRPINS_INFO
(in
CacheableDataType
)
set_current_tag()
(in
MedalMover
)
SetIGTypeOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
SS_Killhairpins_Info
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
AddMPLigandMover
)
SetIGTypeOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
SS_Killhairpins_InfoAP
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
AddMembraneMover
)
SetIGTypeOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
SS_Killhairpins_InfoCAP
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
FlipMover
)
SetIGTypeOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
ss_length_check()
(in
rosetta.protocols.frags._protocols_frags_
)
set_current_tag()
(in
MembranePositionFromTopologyMover
)
SetIGTypeOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
ss_orient()
(in
HSSTriplet
)
set_current_tag()
(in
RandomPositionRotationMover
)
SetInterchangeabilityGroup_String
(in
rosetta.core.chemical._core_chemical_
)
ss_pair
(in
ScoreType
)
set_current_tag()
(in
RandomPositionTranslationMover
)
SetInterchangeabilityGroup_StringAP
(in
rosetta.core.chemical._core_chemical_
)
ss_pair
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
RotationMover
)
SetInterchangeabilityGroup_StringCAP
(in
rosetta.core.chemical._core_chemical_
)
ss_pair
(in
rosetta.core.scoring
)
set_current_tag()
(in
SetMembraneCenterMover
)
SetIO_String
(in
rosetta.core.chemical._core_chemical_
)
ss_pair
(in
rosetta
)
set_current_tag()
(in
SetMembraneNormalMover
)
SetIO_StringAP
(in
rosetta.core.chemical._core_chemical_
)
ss_penalty()
(in
IdentityEval
)
set_current_tag()
(in
SetMembranePositionMover
)
SetIO_StringCAP
(in
rosetta.core.chemical._core_chemical_
)
ss_prediction
(in
rosetta.protocols
)
set_current_tag()
(in
TransformIntoMembraneMover
)
setK()
(in
KofNConstraint
)
SS_predictor
(in
rosetta.protocols.ss_prediction._protocols_ss_prediction_
)
set_current_tag()
(in
TranslationMover
)
SetMembraneCenterMover
(in
rosetta.protocols.membrane._protocols_membrane_
)
SS_predictorAP
(in
rosetta.protocols.ss_prediction._protocols_ss_prediction_
)
set_current_tag()
(in
TranslationRotationMover
)
SetMembraneCenterMoverAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SS_predictorCAP
(in
rosetta.protocols.ss_prediction._protocols_ss_prediction_
)
set_current_tag()
(in
SymmetricAddMembraneMover
)
SetMembraneCenterMoverCAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
ss_str()
(in
IdentityEval
)
set_current_tag()
(in
VisualizeEmbeddingMover
)
SetMembraneCenterMoverCreator
(in
rosetta.protocols.membrane._protocols_membrane_
)
ss_str()
(in
VallResidue
)
set_current_tag()
(in
VisualizeMembraneMover
)
SetMembraneCenterMoverCreatorAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
ss_strings()
(in
EnzdesLoopInfo
)
set_current_tag()
(in
ZincHeterodimerMover
)
SetMembraneCenterMoverCreatorCAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
ss_strings_specified()
(in
EnzdesLoopInfo
)
set_current_tag()
(in
MotifGraftMover
)
SetMembraneNormalMover
(in
rosetta.protocols.membrane._protocols_membrane_
)
ss_type()
(in
SSFeature
)
set_current_tag()
(in
MotifDnaPacker
)
SetMembraneNormalMoverAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSamountFilter
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
CompositionMover
)
SetMembraneNormalMoverCAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSamountFilterAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
CycleMover
)
SetMembraneNormalMoverCreator
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSamountFilterCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
CyclicMover
)
SetMembraneNormalMoverCreatorAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSamountFilterCreator
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
DsspMover
)
SetMembraneNormalMoverCreatorCAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSamountFilterCreatorAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FilterMover
)
SetMembranePositionMover
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSamountFilterCreatorCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_current_tag()
(in
FilterReporterMover
)
SetMembranePositionMoverAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
sscomp()
(in
Xfrag
)
set_current_tag()
(in
IfMover
)
SetMembranePositionMoverCAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSFeature
(in
rosetta.protocols.comparative_modeling.features._protocols_comparative_modeling_features_
)
set_current_tag()
(in
IteratedConvergenceMover
)
SetMembranePositionMoverCreator
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSFeatureAP
(in
rosetta.protocols.comparative_modeling.features._protocols_comparative_modeling_features_
)
set_current_tag()
(in
JumpOutMover
)
SetMembranePositionMoverCreatorAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSFeatureCAP
(in
rosetta.protocols.comparative_modeling.features._protocols_comparative_modeling_features_
)
set_current_tag()
(in
MCShowMover
)
SetMembranePositionMoverCreatorCAP
(in
rosetta.protocols.membrane._protocols_membrane_
)
SSMotifFinder
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
MonteCarloUtil
)
SetMMAtomType
(in
rosetta.core.chemical._core_chemical_
)
SSMotifFinderAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
MoveMapMover
)
SetMMAtomTypeAP
(in
rosetta.core.chemical._core_chemical_
)
SSMotifFinderCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
Mover
)
SetMMAtomTypeCAP
(in
rosetta.core.chemical._core_chemical_
)
SSMotifFinderFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
MoverApplyingMover
)
setName()
(in
Tag
)
SSMotifFinderFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
MoverContainer
)
setNames()
(in
DesignContrast
)
SSMotifFinderFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
MoverForPoseList
)
SetNbrAtom
(in
rosetta.core.chemical._core_chemical_
)
SSPairPotential
(in
rosetta.protocols.fldsgn.potentials.sspot._protocols_fldsgn_potentials_sspot_
)
set_current_tag()
(in
NullMover
)
SetNbrAtomAP
(in
rosetta.core.chemical._core_chemical_
)
SSPairPotentialAP
(in
rosetta.protocols.fldsgn.potentials.sspot._protocols_fldsgn_potentials_sspot_
)
set_current_tag()
(in
PDBDumpMover
)
SetNbrAtomCAP
(in
rosetta.core.chemical._core_chemical_
)
SSPairPotentialCAP
(in
rosetta.protocols.fldsgn.potentials.sspot._protocols_fldsgn_potentials_sspot_
)
set_current_tag()
(in
ProfilerMover
)
SetNbrRadius
(in
rosetta.core.chemical._core_chemical_
)
sspot
(in
rosetta.protocols.fldsgn.potentials
)
set_current_tag()
(in
PyMolMover
)
SetNbrRadiusAP
(in
rosetta.core.chemical._core_chemical_
)
SSType
(in
rosetta.protocols.comparative_modeling.features._protocols_comparative_modeling_features_
)
set_current_tag()
(in
RampingMover
)
SetNbrRadiusCAP
(in
rosetta.core.chemical._core_chemical_
)
SSWeightParameters
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_current_tag()
(in
RandomMover
)
setNeighbors()
(in
DesignContrast
)
SSWeightParametersAP
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_current_tag()
(in
RepeatMover
)
setOptions()
(in
Tag
)
SSWeightParametersCAP
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
set_current_tag()
(in
SequenceMover
)
SetOrientAtom
(in
rosetta.core.chemical._core_chemical_
)
st_atr()
(in
EtableEvaluator
)
set_current_tag()
(in
StructureRestrictor
)
SetOrientAtomAP
(in
rosetta.core.chemical._core_chemical_
)
st_rep()
(in
EtableEvaluator
)
set_current_tag()
(in
TrialMover
)
SetOrientAtomCAP
(in
rosetta.core.chemical._core_chemical_
)
st_sol()
(in
EtableEvaluator
)
set_current_tag()
(in
VectorPoseMover
)
setPdbCodes()
(in
DesignContrast
)
stack_elec
(in
ScoreType
)
set_current_tag()
(in
WhileMover
)
SetPolymerConnectAtom
(in
rosetta.core.chemical._core_chemical_
)
stack_elec
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
StructAvrgMover
)
SetPolymerConnectAtomAP
(in
rosetta.core.chemical._core_chemical_
)
stack_elec
(in
rosetta.core.scoring
)
set_current_tag()
(in
NcbbDockDesignProtocol
)
SetPolymerConnectAtomCAP
(in
rosetta.core.chemical._core_chemical_
)
stack_elec
(in
rosetta
)
set_current_tag()
(in
OopCreatorMover
)
setPose()
(in
ScoringSecMatchRPE
)
stack_elec_base_base
(in
ScoreType
)
set_current_tag()
(in
OopDockDesignProtocol
)
setPoseExtraScore()
(in
rosetta.core.pose._core_pose_
)
stack_elec_base_base
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
CartesianNormalModeMover
)
setPoseExtraScore()
(in
SlidingWindowLoopClosure
)
stack_elec_base_base
(in
rosetta.core.scoring
)
set_current_tag()
(in
NormalModeMinimizer
)
setPoseExtraScore()
(in
ClassicRelax
)
stack_elec_base_base
(in
rosetta
)
set_current_tag()
(in
NormalModeRelaxMover
)
SetRefinementOptionsMover
(in
rosetta.protocols.cryst._protocols_cryst_
)
stack_elec_base_bb
(in
ScoreType
)
set_current_tag()
(in
TorsionNormalModeMover
)
SetRefinementOptionsMoverAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
stack_elec_base_bb
(in
rosetta.core.scoring._core_scoring_
)
set_current_tag()
(in
SetupPoissonBoltzmannPotential
)
SetRefinementOptionsMoverCAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
stack_elec_base_bb
(in
rosetta.core.scoring
)
set_current_tag()
(in
AddChainBreak
)
SetRefinementOptionsMoverCreator
(in
rosetta.protocols.cryst._protocols_cryst_
)
stack_elec_base_bb
(in
rosetta
)
set_current_tag()
(in
AddSidechainConstraintsToHotspots
)
SetRefinementOptionsMoverCreatorAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
StackElecEnergy
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
set_current_tag()
(in
BackrubDDMover
)
SetRefinementOptionsMoverCreatorCAP
(in
rosetta.protocols.cryst._protocols_cryst_
)
StackElecEnergyAP
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
set_current_tag()
(in
BestHotspotCstMover
)
setResidueRange()
(in
RBSegmentMover
)
StackElecEnergyCAP
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
set_current_tag()
(in
BuildAlaPose
)
setResLimits()
(in
PhenixInterface
)
StackElecEnergyCreator
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
set_current_tag()
(in
DesignMinimizeHbonds
)
SetReturningPackRotamersMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
StackElecEnergyCreatorAP
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
set_current_tag()
(in
DisulfideMover
)
SetReturningPackRotamersMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
StackElecEnergyCreatorCAP
(in
rosetta.core.scoring.rna._core_scoring_rna_
)
set_current_tag()
(in
DockAndRetrieveSidechains
)
SetReturningPackRotamersMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
STAGE1
(in
rosetta.basic
)
set_current_tag()
(in
DockWithHotspotMover
)
SetRotamerCouplings
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
STAGE1
(in
ProfTag
)
set_current_tag()
(in
FavorNativeResiduePreCycle
)
SetRotamerCouplingsAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
STAGE1
(in
rosetta.basic._basic_
)
set_current_tag()
(in
FavorNonNativeResiduePreCycle
)
SetRotamerCouplingsCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
stage1_cycles()
(in
ClassicAbinitio
)
set_current_tag()
(in
HotspotDisjointedFoldTreeMover
)
SetRotamerCouplingsCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
stage1_cycles()
(in
FragmentSampler
)
set_current_tag()
(in
HotspotHasherMover
)
SetRotamerCouplingsCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
stage1_cycles()
(in
MembraneAbinitio
)
set_current_tag()
(in
InterfaceRecapitulationMover
)
SetRotamerCouplingsCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
stage1_mover()
(in
JumpingFoldConstraintsWrapper
)
set_current_tag()
(in
LoopFinder
)
SetRotamerLinks
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
stage1_mover()
(in
KinematicAbinitio
)
set_current_tag()
(in
LoopLengthChange
)
SetRotamerLinksAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
STAGE2
(in
rosetta.basic
)
set_current_tag()
(in
LoopMoverFromCommandLine
)
SetRotamerLinksCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
STAGE2
(in
ProfTag
)
set_current_tag()
(in
LoopOver
)
SetRotamerLinksCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
STAGE2
(in
rosetta.basic._basic_
)
set_current_tag()
(in
LoopRemodel
)
SetRotamerLinksCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
stage2_cycles()
(in
ClassicAbinitio
)
set_current_tag()
(in
MapHotspot
)
SetRotamerLinksCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
stage2_cycles()
(in
FragmentSampler
)
set_current_tag()
(in
PatchdockTransform
)
sets()
(in
DisjointSets
)
stage2_cycles()
(in
MembraneAbinitio
)
set_current_tag()
(in
PeptideStapleDesignMover
)
setScoreWindowContext()
(in
ElectronDensity
)
stage2_mover()
(in
JumpingFoldConstraintsWrapper
)
set_current_tag()
(in
PlaceOnLoop
)
setSCscaling()
(in
ElectronDensity
)
stage2_mover()
(in
KinematicAbinitio
)
set_current_tag()
(in
PlaceSimultaneouslyMover
)
SetSDFType()
(in
Bond
)
STAGE2_RESAMPLING
(in
IterationStage
)
set_current_tag()
(in
PlaceStubMover
)
setSecStruct()
(in
DesignContrast
)
STAGE2_RESAMPLING
(in
IterativeBase
)
set_current_tag()
(in
PlacementAuctionMover
)
SetSecStructEnergies
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
STAGE3
(in
rosetta.basic
)
set_current_tag()
(in
PlacementMinimizationMover
)
SetSecStructEnergiesAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
STAGE3
(in
ProfTag
)
set_current_tag()
(in
PrepackMover
)
SetSecStructEnergiesCAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
STAGE3
(in
rosetta.basic._basic_
)
set_current_tag()
(in
ProteinInterfaceMultiStateDesignMover
)
SetSecStructEnergiesCreator
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
stage3_cycles()
(in
ClassicAbinitio
)
set_current_tag()
(in
RandomMutation
)
SetSecStructEnergiesCreatorAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
stage3_cycles()
(in
FragmentSampler
)
set_current_tag()
(in
RepackMinimize
)
SetSecStructEnergiesCreatorCAP
(in
rosetta.protocols.fldsgn.potentials._protocols_fldsgn_potentials_
)
stage3_cycles()
(in
MembraneAbinitio
)
set_current_tag()
(in
SaveAndRetrieveSidechains
)
setSeed()
(in
mt19937_RG
)
stage3_mover()
(in
JumpingFoldConstraintsWrapper
)
set_current_tag()
(in
SetAtomTree
)
setSeed()
(in
standard_RG
)
stage3_mover()
(in
KinematicAbinitio
)
set_current_tag()
(in
SetTemperatureFactor
)
setSeed()
(in
uniform_RG
)
STAGE4
(in
rosetta.basic
)
set_current_tag()
(in
SetupHotspotConstraintsLoopsMover
)
SetTemperatureFactor
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
STAGE4
(in
ProfTag
)
set_current_tag()
(in
SetupHotspotConstraintsMover
)
SetTemperatureFactorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
STAGE4
(in
rosetta.basic._basic_
)
set_current_tag()
(in
ShoveResidueMover
)
SetTemperatureFactorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
stage4_cycles()
(in
ClassicAbinitio
)
set_current_tag()
(in
SpinMover
)
SetTemperatureFactorCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
stage4_cycles()
(in
FragmentSampler
)
set_current_tag()
(in
SubroutineMover
)
SetTemperatureFactorCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
stage4_cycles()
(in
MembraneAbinitio
)
set_current_tag()
(in
TaskAwareCsts
)
SetTemperatureFactorCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
stage4_mover()
(in
JumpingFoldConstraintsWrapper
)
set_current_tag()
(in
TopologyBrokerMover
)
SetTorsion
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
stage4_mover()
(in
KinematicAbinitio
)
set_current_tag()
(in
TryRotamers
)
SetTorsionAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
STAGE5
(in
rosetta.basic
)
set_current_tag()
(in
VLB
)
SetTorsionCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
STAGE5
(in
ProfTag
)
set_current_tag()
(in
AutoRBMover
)
SetTorsionCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
STAGE5
(in
rosetta.basic._basic_
)
set_current_tag()
(in
FragInsertAndAlignMover
)
SetTorsionCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
stage5_cycles()
(in
ClassicAbinitio
)
set_current_tag()
(in
GaussianRBSegmentMover
)
SetTorsionCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
STAGE_1
(in
rosetta
)
set_current_tag()
(in
HelicalGaussianMover
)
SetToType()
(in
PossibleAtomTypesForAtom
)
STAGE_1
(in
rosetta.protocols.abinitio
)
set_current_tag()
(in
IdealizeHelicesMover
)
setTwinLaw()
(in
PhenixInterface
)
STAGE_1
(in
ClassicAbinitio
)
set_current_tag()
(in
MakeStarTopologyMover
)
setup
(in
rosetta.protocols.stepwise
)
STAGE_1
(in
StageID
)
set_current_tag()
(in
OptimizeThreadingMover
)
setup()
(in
CartesianMinimizerMap
)
STAGE_1
(in
MembraneAbinitio
)
set_current_tag()
(in
RBSegmentMover
)
setup()
(in
MinimizerMap
)
STAGE_1
(in
StageID
)
set_current_tag()
(in
RBSegmentRelax
)
setup()
(in
AbrelaxApplication
)
STAGE_1
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_current_tag()
(in
SequenceShiftMover
)
setup()
(in
DataBuffer
)
STAGE_1
(in
StageID
)
set_current_tag()
(in
StrandTwistingMover
)
setup()
(in
PoolData
)
STAGE_2
(in
rosetta
)
set_current_tag()
(in
AtomCoordinateCstMover
)
setup()
(in
LoopRelaxThreadingMover
)
STAGE_2
(in
rosetta.protocols.abinitio
)
set_current_tag()
(in
CentroidRelax
)
setup()
(in
DesignTask
)
STAGE_2
(in
ClassicAbinitio
)
set_current_tag()
(in
ClassicRelax
)
setup()
(in
DesignTask_Layer
)
STAGE_2
(in
StageID
)
set_current_tag()
(in
FastRelax
)
setup()
(in
DesignTask_Normal
)
STAGE_2
(in
MembraneAbinitio
)
set_current_tag()
(in
LocalRelax
)
setup()
(in
NPDPropCalculator
)
STAGE_2
(in
StageID
)
set_current_tag()
(in
MiniRelax
)
setup()
(in
PackDaemon
)
STAGE_2
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_current_tag()
(in
RelaxProtocolBase
)
setup()
(in
SidechainMCMover
)
STAGE_2
(in
StageID
)
set_current_tag()
(in
MPFastRelaxMover
)
setup()
(in
SymmetrySlider
)
STAGE_3
(in
rosetta
)
set_current_tag()
(in
MembraneCenterPerturbationMover
)
setup()
(in
SlicedPoseWorkingParameters
)
STAGE_3
(in
rosetta.protocols.abinitio
)
set_current_tag()
(in
MembraneNormalPerturbationMover
)
setup_A_LH_foldtree()
(in
rosetta.protocols.antibody._protocols_antibody_
)
STAGE_3
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_current_tag()
(in
MovePoseToMembraneCenterMover
)
setup_atom_id_map()
(in
rosetta.core.pose.copydofs._core_pose_copydofs_
)
STAGE_3
(in
StageID
)
set_current_tag()
(in
RigidBodyDeterministicSpinMover
)
setup_atom_id_map_match_atom_names()
(in
rosetta.core.pose.copydofs._core_pose_copydofs_
)
STAGE_3a
(in
rosetta
)
set_current_tag()
(in
RigidBodyDofPerturbMover
)
setup_atom_type_reassignments_from_commandline()
(in
rosetta.core.chemical._core_chemical_
)
STAGE_3a
(in
rosetta.protocols.abinitio
)
set_current_tag()
(in
RigidBodyDofRandomTransMover
)
setup_backrub_atom_tree()
(in
rosetta.core.kinematics._core_kinematics_
)
STAGE_3a
(in
ClassicAbinitio
)
set_current_tag()
(in
RigidBodyDofRandomizeMover
)
setup_base_pair_constraints()
(in
RNA_StructureParameters
)
STAGE_3a
(in
StageID
)
set_current_tag()
(in
RigidBodyDofSeqPerturbMover
)
setup_base_pair_constraints()
(in
rosetta.protocols.farna._protocols_farna_
)
STAGE_3a
(in
MembraneAbinitio
)
set_current_tag()
(in
RigidBodyDofSeqRandomizeMover
)
setup_base_pair_step_chunks()
(in
RNA_ChunkLibrary
)
STAGE_3a
(in
StageID
)
set_current_tag()
(in
RigidBodyDofSeqTransMover
)
setup_bulge_jump_point()
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
STAGE_3a
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_current_tag()
(in
RigidBodyDofTransMover
)
setup_CDR_cluster()
(in
AntibodyInfo
)
STAGE_3a
(in
StageID
)
set_current_tag()
(in
RigidBodyMotionMover
)
setup_CDR_clusters()
(in
AntibodyInfo
)
STAGE_3b
(in
rosetta
)
set_current_tag()
(in
RigidBodyMover
)
setup_centroid_constraints()
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
STAGE_3b
(in
rosetta.protocols.abinitio
)
set_current_tag()
(in
RigidBodyPerturbMover
)
setup_centroid_scatter()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
STAGE_3b
(in
ClassicAbinitio
)
set_current_tag()
(in
RigidBodyPerturbNoCenterMover
)
setup_centroid_screen()
(in
StepWiseProteinBackboneSampler
)
STAGE_3b
(in
StageID
)
set_current_tag()
(in
RigidBodyPerturbRandomJumpMover
)
setup_chain_break_variants()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
STAGE_3b
(in
MembraneAbinitio
)
set_current_tag()
(in
RigidBodyRandomizeMover
)
setup_coarse_chainbreak_constraints()
(in
rosetta.protocols.farna._protocols_farna_
)
STAGE_3b
(in
StageID
)
set_current_tag()
(in
RigidBodySpinMover
)
setup_conformer_map()
(in
rosetta.protocols.motifs._protocols_motifs_
)
STAGE_3b
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_current_tag()
(in
RigidBodyTransMover
)
setup_connectivity()
(in
GoapRsdType
)
STAGE_3b
(in
StageID
)
set_current_tag()
(in
RollMover
)
setup_constraints()
(in
DNATorsionPotential
)
STAGE_4
(in
rosetta
)
set_current_tag()
(in
RotateJumpAxisMover
)
setup_convergence_checks_from_cmdline()
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
STAGE_4
(in
rosetta.protocols.abinitio
)
set_current_tag()
(in
UniformRigidBodyCM
)
setup_corresponding_atoms()
(in
rosetta.core.conformation._core_conformation_
)
STAGE_4
(in
ClassicAbinitio
)
set_current_tag()
(in
UniformRigidBodyMover
)
setup_csts()
(in
FabConstraint
)
STAGE_4
(in
StageID
)
set_current_tag()
(in
UniformSphereTransMover
)
setup_csts()
(in
SiteConstraint
)
STAGE_4
(in
MembraneAbinitio
)
set_current_tag()
(in
WholeBodyRotationMover
)
setup_csts()
(in
SiteConstraintResidues
)
STAGE_4
(in
StageID
)
set_current_tag()
(in
WholeBodyTranslationMover
)
setup_cylindrical_coords()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
STAGE_4
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_current_tag()
(in
AdditionalOutputWrapper
)
setup_d2_bounds()
(in
LK_BallEnergy
)
STAGE_4
(in
StageID
)
set_current_tag()
(in
MultipleOutputWrapper
)
setup_daemons()
(in
DaemonSet
)
STAGE_4rot
(in
ClassicAbinitio
)
set_current_tag()
(in
MultiplePoseMover
)
setup_default_evaluators()
(in
IterativeBase
)
STAGE_4rot
(in
StageID
)
set_current_tag()
(in
ParsedProtocol
)
setup_default_evaluators()
(in
EvaluatedArchive
)
STAGE_5
(in
ClassicAbinitio
)
set_current_tag()
(in
SavePoseMover
)
setup_defaults()
(in
DockingEnsemblePrepackProtocol
)
STAGE_5
(in
StageID
)
set_current_tag()
(in
RotamerRecoveryMover
)
setup_defaults()
(in
DockingPrepackProtocol
)
StageID
(in
ClassicAbinitio
)
set_current_tag()
(in
CAcstGenerator
)
setup_disconnected()
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
StageID
(in
MembraneAbinitio
)
set_current_tag()
(in
CloseFold
)
setup_dof_mask_from_move_map()
(in
rosetta.core.pose._core_pose_
)
StageID
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_current_tag()
(in
CoordinateCst
)
setup_dof_to_torsion_map()
(in
rosetta.core.pose._core_pose_
)
StageID
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_current_tag()
(in
DefineMovableLoops
)
setup_empty_config()
(in
LoopModeler
)
StagePreparer
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_current_tag()
(in
GrowPeptides
)
setup_extra_patches()
(in
SilentFileData
)
StagePreparerAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_current_tag()
(in
SeedFoldTree
)
setup_extra_res()
(in
SilentFileData
)
StagePreparerCAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_current_tag()
(in
SeedSetupMover
)
setup_favor_native_constraints()
(in
EnzdesCacheableObserver
)
stagger()
(in
DNABasepair
)
set_current_tag()
(in
SegmentHybridizer
)
setup_filter_stats()
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
standard
(in
e
)
set_current_tag()
(in
SwapSegment
)
setup_fold()
(in
AbrelaxApplication
)
standard
(in
TransactionMode
)
set_current_tag()
(in
EvaluatedTrialMover
)
setup_fold_tree()
(in
MembraneJump
)
standard_packer_task()
(in
rosetta
)
set_current_tag()
(in
AddCavitiesMover
)
setup_fold_tree()
(in
LoopMover
)
standard_RG
(in
rosetta.numeric.random._numeric_random_
)
set_current_tag()
(in
AddChainMover
)
setup_fold_tree_and_jumps_and_variants()
(in
RNA_StructureParameters
)
standard_RGAP
(in
rosetta.numeric.random._numeric_random_
)
set_current_tag()
(in
AddConstraintsToCurrentConformationMover
)
setup_fold_trees()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
standard_RGCAP
(in
rosetta.numeric.random._numeric_random_
)
set_current_tag()
(in
AddJobPairData
)
setup_foldtree()
(in
rosetta.protocols.docking._protocols_docking_
)
standard_task_factory()
(in
rosetta
)
set_current_tag()
(in
AlignChainMover
)
setup_foldtree()
(in
FoldTreeHybridize
)
StandardDisulfPairingLibrary
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
BBConRotMover
)
setup_foldtree_around_anchor_invrot()
(in
AlignPoseToInvrotTreeMover
)
StandardDisulfPairingLibraryAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
BBG8T3AMover
)
setup_for_derivatives()
(in
DunbrackConstraint
)
StandardDisulfPairingLibraryCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
BBGaussianMover
)
setup_for_derivatives()
(in
DunbrackEnergy
)
StandardPairingLibrary
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
BackboneMover
)
setup_for_derivatives()
(in
RotamerConstraint
)
StandardPairingLibraryAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
BoltzmannRotamerMover
)
setup_for_derivatives()
(in
CenRotDunEnergy
)
StandardPairingLibraryCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
set_current_tag()
(in
ChainSplitMover
)
setup_for_derivatives()
(in
HPatchEnergy
)
StandardPivots
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
set_current_tag()
(in
ChangeAndResetFoldTreeMover
)
setup_for_derivatives()
(in
SurfaceEnergy
)
StandardPivotsAP
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
set_current_tag()
(in
ClearConstraintsMover
)
setup_for_derivatives()
(in
DockingScoreFunction
)
StandardPivotsCAP
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
set_current_tag()
(in
CombinePoseMover
)
setup_for_derivatives()
(in
MinScoreScoreFunction
)
star
(in
rosetta.protocols
)
set_current_tag()
(in
ConsensusDesignMover
)
setup_for_derivatives()
(in
MinimizationEdge
)
star_fold_tree()
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
set_current_tag()
(in
ConstrainToIdealMover
)
setup_for_derivatives()
(in
MinimizationNode
)
start
(in
ResidueIdentifier
)
set_current_tag()
(in
ConstraintSetMover
)
setup_for_derivatives()
(in
ScoreFunction
)
start
(in
rosetta.protocols.loops._protocols_loops_
)
set_current_tag()
(in
ContingentAcceptMover
)
setup_for_derivatives()
(in
CarbonHBondEnergy
)
start
(in
rosetta.protocols.loops
)
set_current_tag()
(in
CopyDofMover
)
setup_for_derivatives()
(in
AmbiguousConstraint
)
start
(in
rosetta
)
set_current_tag()
(in
CoupledMover
)
setup_for_derivatives()
(in
AmbiguousNMRConstraint
)
start()
(in
Span
)
set_current_tag()
(in
CutChainMover
)
setup_for_derivatives()
(in
AmbiguousNMRDistanceConstraint
)
start()
(in
Frame
)
set_current_tag()
(in
CyclizationMover
)
setup_for_derivatives()
(in
AngleConstraint
)
start()
(in
Edge
)
set_current_tag()
(in
DME_FilterMover
)
setup_for_derivatives()
(in
AtomPairConstraint
)
start()
(in
Sequence
)
set_current_tag()
(in
DeleteChainsMover
)
setup_for_derivatives()
(in
BackboneStubConstraint
)
start()
(in
MultiDimensionalHistogram
)
set_current_tag()
(in
DesignRepackMover
)
setup_for_derivatives()
(in
BackboneStubLinearConstraint
)
start()
(in
Anchor
)
set_current_tag()
(in
DisulfideInsertionMover
)
setup_for_derivatives()
(in
BigBinConstraint
)
start()
(in
CDRCluster
)
set_current_tag()
(in
DumpPdb
)
setup_for_derivatives()
(in
ConstantConstraint
)
start()
(in
Environment
)
set_current_tag()
(in
EnergyCutRotamerTrialsMinMover
)
setup_for_derivatives()
(in
Constraint
)
start()
(in
HelicalFragment
)
set_current_tag()
(in
EnergyCutRotamerTrialsMover
)
setup_for_derivatives()
(in
ConstraintSet
)
start()
(in
GraftMoverBase
)
set_current_tag()
(in
ExtendedPoseMover
)
setup_for_derivatives()
(in
Constraints
)
start()
(in
DeleteRegionMover
)
set_current_tag()
(in
FavorSequenceProfile
)
setup_for_derivatives()
(in
ConstraintsEnergy
)
start()
(in
InsertPoseIntoPoseMover
)
set_current_tag()
(in
FavorSymmetricSequence
)
setup_for_derivatives()
(in
CoordinateConstraint
)
start()
(in
KeepRegionMover
)
set_current_tag()
(in
FindConsensusSequence
)
setup_for_derivatives()
(in
DihedralConstraint
)
start()
(in
Interval
)
set_current_tag()
(in
ForceDisulfidesMover
)
setup_for_derivatives()
(in
DihedralPairConstraint
)
start()
(in
Loop
)
set_current_tag()
(in
GenericMonteCarloMover
)
setup_for_derivatives()
(in
DistancePairConstraint
)
start()
(in
RBResidueRange
)
set_current_tag()
(in
GreenPacker
)
setup_for_derivatives()
(in
FabConstraint
)
start()
(in
EnzdesLoopInfo
)
set_current_tag()
(in
LoadPDBMover
)
setup_for_derivatives()
(in
KofNConstraint
)
start_atom()
(in
Edge
)
set_current_tag()
(in
LoadUnboundRotMover
)
setup_for_derivatives()
(in
LocalCoordinateConstraint
)
start_atomid()
(in
BackrubSegment
)
set_current_tag()
(in
MSDMover
)
setup_for_derivatives()
(in
MultiConstraint
)
start_atomid1()
(in
BackrubSegment
)
set_current_tag()
(in
MakePolyXMover
)
setup_for_derivatives()
(in
NamedAngleConstraint
)
start_atomid2()
(in
BackrubSegment
)
set_current_tag()
(in
MembraneTopology
)
setup_for_derivatives()
(in
NamedAtomPairConstraint
)
start_atoms1()
(in
BackrubSegment
)
set_current_tag()
(in
MinMover
)
setup_for_derivatives()
(in
NonResidueTypeConstraint
)
start_atoms2()
(in
BackrubSegment
)
set_current_tag()
(in
MinPackMover
)
setup_for_derivatives()
(in
ResidueTypeConstraint
)
start_bond_angle_key()
(in
BackrubSegment
)
set_current_tag()
(in
MissingDensityToJumpMover
)
setup_for_derivatives()
(in
ResidueTypeLinkingConstraint
)
start_cdr_loop
(in
CDRNameEnum
)
set_current_tag()
(in
ModifyVariantTypeMover
)
setup_for_derivatives()
(in
SequenceProfileConstraint
)
start_cdr_loop
(in
rosetta.protocols.antibody._protocols_antibody_
)
set_current_tag()
(in
MonteCarloRecover
)
setup_for_derivatives()
(in
SiteConstraint
)
start_cdr_loop
(in
rosetta.protocols.antibody
)
set_current_tag()
(in
MonteCarloReset
)
setup_for_derivatives()
(in
SiteConstraintResidues
)
start_decoy()
(in
PyJobDistributor
)
set_current_tag()
(in
MonteCarloTest
)
setup_for_derivatives()
(in
XtalMLEnergy
)
start_doc()
(in
Emitter
)
set_current_tag()
(in
MutateResidue
)
setup_for_derivatives()
(in
FullatomCustomPairDistanceEnergy
)
start_doc()
(in
JsonEmitter
)
set_current_tag()
(in
O2M_MutateMover
)
setup_for_derivatives()
(in
CentroidDisulfideEnergy
)
start_doc()
(in
YamlEmitter
)
set_current_tag()
(in
PDBReloadMover
)
setup_for_derivatives()
(in
DisulfideMatchingEnergy
)
start_evaluation_timer()
(in
EvaluatedArchive
)
set_current_tag()
(in
PSSM2BfactorMover
)
setup_for_derivatives()
(in
FullatomDisulfideEnergy
)
start_file()
(in
rosetta.basic.options._basic_options_
)
set_current_tag()
(in
PackRotamersMover
)
setup_for_derivatives()
(in
DNAChiEnergy
)
start_files()
(in
rosetta.basic.options._basic_options_
)
set_current_tag()
(in
PackRotamersMoverLazy
)
setup_for_derivatives()
(in
DNATorsionEnergy
)
start_from_centroid()
(in
ClassicAbinitio
)
set_current_tag()
(in
PeptideStapleMover
)
setup_for_derivatives()
(in
FA_ElecEnergy
)
start_from_centroid()
(in
DoubleLayerKinematicAbinitio
)
set_current_tag()
(in
PeriodicBoxMover
)
setup_for_derivatives()
(in
FA_ElecEnergyAroAll
)
start_from_centroid()
(in
FoldConstraints
)
set_current_tag()
(in
ProlineFixMover
)
setup_for_derivatives()
(in
FA_ElecEnergyAroAro
)
start_from_centroid()
(in
JumpingFoldConstraintsWrapper
)
set_current_tag()
(in
RandomOmegaFlipMover
)
setup_for_derivatives()
(in
FA_GrpElecEnergy
)
start_from_centroid()
(in
KinematicAbinitio
)
set_current_tag()
(in
RandomTorsionMover
)
setup_for_derivatives()
(in
RNA_FA_ElecEnergy
)
start_from_centroid()
(in
KinematicTaskControl
)
set_current_tag()
(in
RepackSidechainsMover
)
setup_for_derivatives()
(in
ElecDensAllAtomCenEnergy
)
start_from_centroid()
(in
LoopJumpFoldCst
)
set_current_tag()
(in
RepeatPropagationMover
)
setup_for_derivatives()
(in
ElecDensCenEnergy
)
start_from_centroid()
(in
MembraneAbinitio
)
set_current_tag()
(in
ReportEffectivePKA
)
setup_for_derivatives()
(in
ElecDensEnergy
)
start_from_centroid()
(in
Protocol
)
set_current_tag()
(in
RepulsiveOnlyMover
)
setup_for_derivatives()
(in
FastDensEnergy
)
start_list()
(in
Emitter
)
set_current_tag()
(in
ResetBaselineMover
)
setup_for_derivatives()
(in
PattersonCorrEnergy
)
start_map()
(in
Emitter
)
set_current_tag()
(in
ResidueTypeConstraintMover
)
setup_for_derivatives()
(in
ElecDensAtomwiseEnergy
)
start_new_batch()
(in
BaseArchiveManager
)
set_current_tag()
(in
ReturnSidechainMover
)
setup_for_derivatives()
(in
AnalyticEtableEnergy
)
start_new_match()
(in
WriteUpstreamHitKinemage
)
set_current_tag()
(in
RingConformationMover
)
setup_for_derivatives()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
start_pdb()
(in
EnzdesLoopInfo
)
set_current_tag()
(in
RotamerTrialsMinMover
)
setup_for_derivatives()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
start_pdb_chain()
(in
EnzdesLoopInfo
)
set_current_tag()
(in
RotamerTrialsMover
)
setup_for_derivatives()
(in
TableLookupEtableEnergy
)
start_pose()
(in
ResolutionSwitcher
)
set_current_tag()
(in
RotamerizeMover
)
setup_for_derivatives()
(in
FiberDiffractionEnergy
)
start_res()
(in
DockingEnsemble
)
set_current_tag()
(in
SaneMinMover
)
setup_for_derivatives()
(in
FiberDiffractionEnergyDens
)
start_res()
(in
LoopFromFileData
)
set_current_tag()
(in
ScoreMover
)
setup_for_derivatives()
(in
ContextDependentGeometricSolEnergy
)
start_res()
(in
KinematicMover
)
set_current_tag()
(in
SequenceProfileMover
)
setup_for_derivatives()
(in
ContextIndependentGeometricSolEnergy
)
start_res()
(in
RelativeSegmentFilter
)
set_current_tag()
(in
SetReturningPackRotamersMover
)
setup_for_derivatives()
(in
ExactOccludedHbondSolEnergy
)
start_res()
(in
AlignedThreadOperation
)
set_current_tag()
(in
SetTorsion
)
setup_for_derivatives()
(in
OccludedHbondSolEnergy
)
start_res()
(in
DatabaseThread
)
set_current_tag()
(in
ShakeStructureMover
)
setup_for_derivatives()
(in
OccludedHbondSolEnergy_onebody
)
start_res()
(in
RestrictToAlignedSegmentsOperation
)
set_current_tag()
(in
ShearMover
)
setup_for_derivatives()
(in
HackAroEnergy
)
start_res()
(in
ThreadSequenceOperation
)
set_current_tag()
(in
ShortBackrubMover
)
setup_for_derivatives()
(in
HBondEnergy
)
start_seq2()
(in
DerivedSequenceMapping
)
set_current_tag()
(in
SmallMover
)
setup_for_derivatives()
(in
DDPscore
)
start_time()
(in
Job
)
set_current_tag()
(in
SuperimposeMover
)
setup_for_derivatives()
(in
LoopCloseEnergy
)
start_time()
(in
ExpiryFilter
)
set_current_tag()
(in
SwitchChainOrderMover
)
setup_for_derivatives()
(in
FaMPEnvEnergy
)
start_timing()
(in
Job
)
set_current_tag()
(in
SwitchResidueTypeSetMover
)
setup_for_derivatives()
(in
FaMPEnvSmoothEnergy
)
start_tree_at_chain()
(in
SetAtomTree
)
set_current_tag()
(in
TailsScoreMover
)
setup_for_derivatives()
(in
FaMPSolvEnergy
)
start_weight()
(in
RampingMover
)
set_current_tag()
(in
TaskAwareMinMover
)
setup_for_derivatives()
(in
MPCbetaEnergy
)
StartFrom
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_current_tag()
(in
TorsionDOFMover
)
setup_for_derivatives()
(in
MPEnvEnergy
)
StartFromAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_current_tag()
(in
TorsionSetMover
)
setup_for_derivatives()
(in
MPLipoEnergy
)
StartFromCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_current_tag()
(in
Tumble
)
setup_for_derivatives()
(in
MPNonHelixPenalty
)
StartFromCreator
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_current_tag()
(in
UniformRotationMover
)
setup_for_derivatives()
(in
MPPairEnergy
)
StartFromCreatorAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_current_tag()
(in
UniformTranslationMover
)
setup_for_derivatives()
(in
MPTMProjPenalty
)
StartFromCreatorCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
set_current_tag()
(in
VirtualRootMover
)
setup_for_derivatives()
(in
MPTerminiPenalty
)
starting_pose()
(in
PDBOutput
)
set_current_tag()
(in
ddG
)
setup_for_derivatives()
(in
BurialEnergy
)
starting_pose()
(in
DatabaseJobOutputter
)
set_current_tag()
(in
AsymFoldandDockMoveRbJumpMover
)
setup_for_derivatives()
(in
CartesianBondedEnergy
)
starting_pose()
(in
AtomTreeDiffJobOutputter
)
set_current_tag()
(in
AsymFoldandDockRbTrialMover
)
setup_for_derivatives()
(in
CenHBEnergy
)
starting_pose()
(in
FileJobOutputter
)
set_current_tag()
(in
InitializeByBins
)
setup_for_derivatives()
(in
CenPairEnergy
)
starting_pose()
(in
JobOutputter
)
set_current_tag()
(in
PerturbByBins
)
setup_for_derivatives()
(in
CenRotEnvEnergy
)
starting_pose()
(in
NoOutputJobOutputter
)
set_current_tag()
(in
ChiralMover
)
setup_for_derivatives()
(in
CenRotPairEnergy
)
starting_pose()
(in
PDBJobOutputter
)
set_current_tag()
(in
HbsPatcher
)
setup_for_derivatives()
(in
ChainbreakEnergy
)
starting_pose()
(in
ScoreOnlyJobOutputter
)
set_current_tag()
(in
OopDPuckMinusMover
)
setup_for_derivatives()
(in
ChemicalShiftAnisotropyEnergy
)
starting_pose()
(in
SilentFileJobOutputter
)
set_current_tag()
(in
OopDPuckPlusMover
)
setup_for_derivatives()
(in
ContactOrderEnergy
)
startswith()
(in
rosetta.utility._utility_
)
set_current_tag()
(in
OopMover
)
setup_for_derivatives()
(in
ContextDependentLRTwoBodyEnergy
)
startup()
(in
BaseJobDistributor
)
set_current_tag()
(in
OopPatcher
)
setup_for_derivatives()
(in
ContextDependentOneBodyEnergy
)
startup()
(in
PlainPdbJobDistributor
)
set_current_tag()
(in
OopPuckMinusMover
)
setup_for_derivatives()
(in
ContextDependentTwoBodyEnergy
)
startup()
(in
PlainSilentFileJobDistributor
)
set_current_tag()
(in
OopPuckPlusMover
)
setup_for_derivatives()
(in
ContextIndependentLRTwoBodyEnergy
)
stat_motifs()
(in
MotifHits
)
set_current_tag()
(in
OopRandomPuckMover
)
setup_for_derivatives()
(in
ContextIndependentOneBodyEnergy
)
state()
(in
BuildInstruction
)
set_current_tag()
(in
OopRandomSmallMover
)
setup_for_derivatives()
(in
ContextIndependentTwoBodyEnergy
)
state()
(in
WorkUnit_ElScripts
)
set_current_tag()
(in
RationalMonteCarlo
)
setup_for_derivatives()
(in
CustomAtomPairEnergy
)
state_energies()
(in
MultistateFitnessFunction
)
set_current_tag()
(in
JumpRotamerSidechainMover
)
setup_for_derivatives()
(in
D2H_SA_Energy
)
state_has_same_backbone_as_current()
(in
FlexbbNode
)
set_current_tag()
(in
PerturbChiSidechainMover
)
setup_for_derivatives()
(in
DNA_BaseEnergy
)
state_info()
(in
FlexbbNode
)
set_current_tag()
(in
PerturbRotamerSidechainMover
)
setup_for_derivatives()
(in
DipolarCouplingEnergy
)
state_name()
(in
DynamicAggregateFunction
)
set_current_tag()
(in
SetChiMover
)
setup_for_derivatives()
(in
DirectReadoutEnergy
)
state_offsets_for_aa_for_bb()
(in
FlexbbNode
)
set_current_tag()
(in
SidechainMCMover
)
setup_for_derivatives()
(in
DistanceChainbreakEnergy
)
state_offsets_for_bb()
(in
FlexbbNode
)
set_current_tag()
(in
SidechainMover
)
setup_for_derivatives()
(in
EnergyMethod
)
state_unassigned()
(in
DensePDNode
)
set_current_tag()
(in
SidechainMoverBase
)
setup_for_derivatives()
(in
EnvEnergy
)
state_unassigned()
(in
DoubleDensePDNode
)
set_current_tag()
(in
DetectSymmetry
)
setup_for_derivatives()
(in
EnvSmoothEnergy
)
state_unassigned()
(in
DoubleLazyNode
)
set_current_tag()
(in
ExtractAsymmetricPoseMover
)
setup_for_derivatives()
(in
Fa_MbenvEnergy
)
state_unassigned()
(in
FASTERNode
)
set_current_tag()
(in
ExtractAsymmetricUnitMover
)
setup_for_derivatives()
(in
Fa_MbsolvEnergy
)
state_unassigned()
(in
LazyNode
)
set_current_tag()
(in
FaSymDockingSlideTogether
)
setup_for_derivatives()
(in
FreeDOF_Energy
)
state_unassigned()
(in
LinearMemNode
)
set_current_tag()
(in
SetupForSymmetryMover
)
setup_for_derivatives()
(in
GaussianOverlapEnergy
)
state_unassigned()
(in
NodeBase
)
set_current_tag()
(in
SetupNCSMover
)
setup_for_derivatives()
(in
GenBornEnergy
)
state_unassigned()
(in
OnTheFlyNode
)
set_current_tag()
(in
SymDockingInitialPerturbation
)
setup_for_derivatives()
(in
GoapEnergy
)
state_unassigned()
(in
PDNode
)
set_current_tag()
(in
SymDockingSlideIntoContact
)
setup_for_derivatives()
(in
HybridVDW_Energy
)
state_unassigned()
(in
RotamerDots
)
set_current_tag()
(in
SymEnergyCutRotamerTrialsMover
)
setup_for_derivatives()
(in
IntermolEnergy
)
state_unassigned()
(in
SymmLinearMemNode
)
set_current_tag()
(in
SymMinMover
)
setup_for_derivatives()
(in
LK_BallEnergy
)
state_unassigned()
(in
SymmMinimalistNode
)
set_current_tag()
(in
SymPackRotamersMover
)
setup_for_derivatives()
(in
LK_PolarNonPolarEnergy
)
state_unassigned()
(in
SymmOnTheFlyNode
)
set_current_tag()
(in
SymRotamerTrialsMover
)
setup_for_derivatives()
(in
LK_hack
)
state_unassigned()
(in
FlexbbNode
)
set_current_tag()
(in
SymShakeStructureMover
)
setup_for_derivatives()
(in
LinearChainbreakEnergy
)
state_unassigned()
(in
MinimalistFlexbbNode
)
set_current_tag()
(in
SymmetricRMSMover
)
setup_for_derivatives()
(in
LongRangeTwoBodyEnergy
)
state_unassigned()
(in
OTFFlexbbNode
)
set_current_tag()
(in
TaskAwareSymMinMover
)
setup_for_derivatives()
(in
MMBondAngleEnergy
)
StateAccumulatingMatchFilter
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_current_tag()
(in
StepWiseProteinMinimizer
)
setup_for_derivatives()
(in
MMBondLengthEnergy
)
StateAccumulatingMatchFilterAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_current_tag()
(in
StepWiseProteinPoseSetup
)
setup_for_derivatives()
(in
MMLJEnergyInter
)
StateAccumulatingMatchFilterCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
set_current_tag()
(in
StepWiseRNA_PoseSetup
)
setup_for_derivatives()
(in
MMLJEnergyIntra
)
stateless
(in
rosetta.protocols.docking
)
set_current_tag()
(in
StepWiseConnectionSampler
)
setup_for_derivatives()
(in
MMTorsionEnergy
)
statistics
(in
rosetta.numeric
)
set_current_tag()
(in
StepWiseMinimizer
)
setup_for_derivatives()
(in
MembraneCbetaEnergy
)
statistics_filename()
(in
BackrubSidechainMover
)
set_current_tag()
(in
StepWiseModeler
)
setup_for_derivatives()
(in
MembraneCenPairEnergy
)
statistics_valid()
(in
ArchiveBase
)
set_current_tag()
(in
SideChainCopier
)
setup_for_derivatives()
(in
MembraneEnvEnergy
)
StatsType
(in
rosetta.protocols.moves._protocols_moves_
)
set_current_tag()
(in
StepWisePacker
)
setup_for_derivatives()
(in
MembraneEnvPenalties
)
status()
(in
RocPoint
)
set_current_tag()
(in
PolarHydrogenPacker
)
setup_for_derivatives()
(in
MembraneEnvSmoothEnergy
)
status_prefix()
(in
Job
)
set_current_tag()
(in
PrecomputedLibraryMover
)
setup_for_derivatives()
(in
MembraneLipo
)
std
(in
rosetta.utility.pointer
)
set_current_tag()
(in
StepWiseProteinBackboneSampler
)
setup_for_derivatives()
(in
MissingEnergy
)
std_istream
(in
rosetta.utility._utility_
)
set_current_tag()
(in
StepWiseProteinCCD_Closer
)
setup_for_derivatives()
(in
NMerPSSMEnergy
)
std_ostream
(in
rosetta.utility._utility_
)
set_current_tag()
(in
StepWiseProteinCCD_MultiPoseCloser
)
setup_for_derivatives()
(in
NMerRefEnergy
)
std_vector_char
(in
rosetta.utility._utility_
)
set_current_tag()
(in
StepWiseProteinKIC_LoopBridger
)
setup_for_derivatives()
(in
NMerSVMEnergy
)
std_vector_double
(in
rosetta.utility._utility_
)
set_current_tag()
(in
BulgeApplyMover
)
setup_for_derivatives()
(in
OmegaTetherEnergy
)
std_vector_float
(in
rosetta.utility._utility_
)
set_current_tag()
(in
BulgeUnApplyMover
)
setup_for_derivatives()
(in
OneBodyEnergy
)
std_vector_int
(in
rosetta.utility._utility_
)
set_current_tag()
(in
RNA_ChainClosureChecker
)
setup_for_derivatives()
(in
OtherPoseEnergy
)
std_vector_Real
(in
rosetta.utility._utility_
)
set_current_tag()
(in
RNA_HelixAssembler
)
setup_for_derivatives()
(in
P_AA_Energy
)
std_vector_Size
(in
rosetta.utility._utility_
)
set_current_tag()
(in
O2PrimePacker
)
setup_for_derivatives()
(in
P_AA_pp_Energy
)
std_vector_SSize
(in
rosetta.utility._utility_
)
set_current_tag()
(in
MultiPhosphateSampler
)
setup_for_derivatives()
(in
PackStatEnergy
)
std_vector_string
(in
rosetta.utility._utility_
)
set_current_tag()
(in
PhosphateMover
)
setup_for_derivatives()
(in
PairEnergy
)
std_vector_uint
(in
rosetta.utility._utility_
)
set_current_tag()
(in
SugarInstantiateMover
)
setup_for_derivatives()
(in
PeptideBondEnergy
)
steal()
(in
AnnotatedFragData
)
set_current_tag()
(in
SugarVirtualizeMover
)
setup_for_derivatives()
(in
PoissonBoltzmannEnergy
)
steal()
(in
BBTorsionAndAnglesSRFD
)
set_current_tag()
(in
VirtualSugarJustInTimeInstantiator
)
setup_for_derivatives()
(in
ProClosureEnergy
)
steal()
(in
BBTorsionSRFD
)
set_current_tag()
(in
VirtualSugarSampler
)
setup_for_derivatives()
(in
ProQ_Energy
)
steal()
(in
DownJumpSRFD
)
set_current_tag()
(in
VirtualSugarSamplerFromStringList
)
setup_for_derivatives()
(in
RG_Energy_Fast
)
steal()
(in
FragData
)
set_current_tag()
(in
StepWiseMonteCarlo
)
setup_for_derivatives()
(in
RG_LocalEnergy
)
steal()
(in
Frame
)
set_current_tag()
(in
AddMover
)
setup_for_derivatives()
(in
RMS_Energy
)
steal()
(in
IndependentBBTorsionSRFD
)
set_current_tag()
(in
AddOrDeleteMover
)
setup_for_derivatives()
(in
Rama2BOffsetEnergy
)
steal()
(in
SecstructSRFD
)
set_current_tag()
(in
DeleteMover
)
setup_for_derivatives()
(in
RamachandranEnergy
)
steal()
(in
SingleResidueFragData
)
set_current_tag()
(in
FromScratchMover
)
setup_for_derivatives()
(in
RamachandranEnergy2B
)
steal()
(in
UpJumpSRFD
)
set_current_tag()
(in
ResampleMover
)
setup_for_derivatives()
(in
ReferenceEnergy
)
steal_alignment()
(in
rosetta.core.sequence._core_sequence_
)
set_current_tag()
(in
StepWiseMasterMover
)
setup_for_derivatives()
(in
ReferenceEnergyNoncanonical
)
steal_constant_length_frag_set_from_pose()
(in
rosetta.core.fragment._core_fragment_
)
set_current_tag()
(in
RNA_AddDeleteMonteCarlo
)
setup_for_derivatives()
(in
ResidualDipolarCouplingEnergy
)
steal_def()
(in
DunbrackConstraint
)
set_current_tag()
(in
RNA_O2PrimeMover
)
setup_for_derivatives()
(in
ResidualDipolarCouplingEnergy_Rohl
)
steal_def()
(in
RotamerConstraint
)
set_current_tag()
(in
RNA_TorsionMover
)
setup_for_derivatives()
(in
SA_Energy
)
steal_def()
(in
AmbiguousConstraint
)
set_current_tag()
(in
JumpStepWiseSampler
)
setup_for_derivatives()
(in
SecondaryStructureEnergy
)
steal_def()
(in
AmbiguousNMRConstraint
)
set_current_tag()
(in
MC_Comb
)
setup_for_derivatives()
(in
SequenceDependentRefEnergy
)
steal_def()
(in
AmbiguousNMRDistanceConstraint
)
set_current_tag()
(in
MC_OneTorsion
)
setup_for_derivatives()
(in
ShortRangeTwoBodyEnergy
)
steal_def()
(in
AngleConstraint
)
set_current_tag()
(in
NoOpStepWiseSampler
)
setup_for_derivatives()
(in
SmoothCenPairEnergy
)
steal_def()
(in
AtomPairConstraint
)
set_current_tag()
(in
StepWiseSamplerAny
)
setup_for_derivatives()
(in
SmoothEnvEnergy
)
steal_def()
(in
BackboneStubConstraint
)
set_current_tag()
(in
StepWiseSamplerComb
)
setup_for_derivatives()
(in
SuckerEnergy
)
steal_def()
(in
BackboneStubLinearConstraint
)
set_current_tag()
(in
StepWiseSamplerOneTorsion
)
setup_for_derivatives()
(in
SymmetricLigandEnergy
)
steal_def()
(in
BigBinConstraint
)
set_current_tag()
(in
StepWiseSamplerOneValue
)
setup_for_derivatives()
(in
TwoBodyEnergy
)
steal_def()
(in
ConstantConstraint
)
set_current_tag()
(in
StepWiseSamplerOneValueComb
)
setup_for_derivatives()
(in
UnfoldedStateEnergy
)
steal_def()
(in
Constraint
)
set_current_tag()
(in
StepWiseSamplerSized
)
setup_for_derivatives()
(in
WaterAdductHBondEnergy
)
steal_def()
(in
CoordinateConstraint
)
set_current_tag()
(in
StepWiseSamplerSizedAny
)
setup_for_derivatives()
(in
WaterAdductIntraEnergy
)
steal_def()
(in
DihedralConstraint
)
set_current_tag()
(in
StepWiseSamplerSizedComb
)
setup_for_derivatives()
(in
WholeStructureEnergy
)
steal_def()
(in
DihedralPairConstraint
)
set_current_tag()
(in
CopyDofStepWiseSampler
)
setup_for_derivatives()
(in
YHHPlanarityEnergy
)
steal_def()
(in
DistancePairConstraint
)
set_current_tag()
(in
ResidueAlternativeStepWiseSampler
)
setup_for_derivatives()
(in
pHEnergy
)
steal_def()
(in
FabConstraint
)
set_current_tag()
(in
ResidueAlternativeStepWiseSamplerComb
)
setup_for_derivatives()
(in
SugarBackboneEnergy
)
steal_def()
(in
KofNConstraint
)
set_current_tag()
(in
ResidueListStepWiseSampler
)
setup_for_derivatives()
(in
DFIRE_Energy
)
steal_def()
(in
LocalCoordinateConstraint
)
set_current_tag()
(in
InputStreamStepWiseSampler
)
setup_for_derivatives()
(in
NVscore
)
steal_def()
(in
MultiConstraint
)
set_current_tag()
(in
ProteinBetaAntiParallelStepWiseSampler
)
setup_for_derivatives()
(in
OrbitalsScore
)
steal_def()
(in
NamedAngleConstraint
)
set_current_tag()
(in
ProteinFragmentStepWiseSampler
)
setup_for_derivatives()
(in
HolesEnergy
)
steal_def()
(in
NamedAtomPairConstraint
)
set_current_tag()
(in
ProteinMainChainStepWiseSampler
)
setup_for_derivatives()
(in
HolesEnergyRes
)
steal_def()
(in
NonResidueTypeConstraint
)
set_current_tag()
(in
RigidBodyStepWiseSampler
)
setup_for_derivatives()
(in
SurfEnergy
)
steal_def()
(in
ResidueTypeConstraint
)
set_current_tag()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
setup_for_derivatives()
(in
SurfVolEnergy
)
steal_def()
(in
ResidueTypeLinkingConstraint
)
set_current_tag()
(in
RigidBodyStepWiseSamplerWithResidueList
)
setup_for_derivatives()
(in
RG_Energy_RNA
)
steal_def()
(in
SequenceProfileConstraint
)
set_current_tag()
(in
RNA_ChiStepWiseSampler
)
setup_for_derivatives()
(in
RNA_BulgeEnergy
)
steal_def()
(in
SiteConstraint
)
set_current_tag()
(in
RNA_KIC_Sampler
)
setup_for_derivatives()
(in
RNA_FullAtomStackingEnergy
)
steal_def()
(in
SiteConstraintResidues
)
set_current_tag()
(in
RNA_KinematicCloser
)
setup_for_derivatives()
(in
RNA_FullAtomVDW_BasePhosphate
)
steal_def()
(in
AmbiguousMultiConstraint
)
set_current_tag()
(in
RNA_MC_MultiSuite
)
setup_for_derivatives()
(in
RNA_JR_SuiteEnergy
)
steal_def()
(in
BindingSiteConstraint
)
set_current_tag()
(in
RNA_MC_Sugar
)
setup_for_derivatives()
(in
RNA_LJ_BaseEnergy
)
steal_def()
(in
COMCoordinateConstraint
)
set_current_tag()
(in
RNA_MC_Suite
)
setup_for_derivatives()
(in
RNA_Mg_Energy
)
steal_def()
(in
SequenceCoupling1BDConstraint
)
set_current_tag()
(in
RNA_NucleosideStepWiseSampler
)
setup_for_derivatives()
(in
RNA_PairwiseLowResolutionEnergy
)
steal_def()
(in
SequenceCouplingConstraint
)
set_current_tag()
(in
RNA_SugarStepWiseSampler
)
setup_for_derivatives()
(in
RNA_SugarCloseEnergy
)
steal_def()
(in
PocketConstraint
)
set_current_tag()
(in
RNA_SuiteStepWiseSampler
)
setup_for_derivatives()
(in
RNA_SuiteEnergy
)
steal_def_clone()
(in
ConstraintSet
)
set_current_tag()
(in
StepWiseCSA_JobDistributor
)
setup_for_derivatives()
(in
RNA_TorsionEnergy
)
steal_def_clone()
(in
IgnoreSubsetConstraintSet
)
set_current_tag()
(in
StepWiseJobDistributor
)
setup_for_derivatives()
(in
RNA_VDW_Energy
)
steal_def_clone()
(in
MaxSeqSepConstraintSet
)
set_current_tag()
(in
StepWiseMonteCarloJobDistributor
)
setup_for_derivatives()
(in
StackElecEnergy
)
steal_frag_set_from_pose()
(in
rosetta.core.fragment._core_fragment_
)
set_current_tag()
(in
CentroidRelaxMover
)
setup_for_derivatives()
(in
RNA_ChemicalShiftEnergy
)
steal_frags()
(in
Template
)
set_current_tag()
(in
FullatomRelaxMover
)
setup_for_derivatives()
(in
RNA_ChemicalMappingEnergy
)
steal_jumps()
(in
JumpSample
)
set_current_tag()
(in
SurfaceDockingProtocol
)
setup_for_derivatives()
(in
RNA_DataBackboneEnergy
)
steal_ligands()
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
set_current_tag()
(in
SurfaceOrientMover
)
setup_for_derivatives()
(in
FastSAXSEnergy
)
steal_orientation_and_pleating()
(in
JumpSample
)
set_current_tag()
(in
SymDockBaseProtocol
)
setup_for_derivatives()
(in
SAXSEnergy
)
StealLigandMover
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
set_current_tag()
(in
SymDockProtocol
)
setup_for_derivatives()
(in
symEnergy
)
StealLigandMoverAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
set_current_tag()
(in
SymDockingHiRes
)
setup_for_derivatives()
(in
SymmetricScoreFunction
)
StealLigandMoverCAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
set_current_tag()
(in
SymDockingLowRes
)
setup_for_derivatives()
(in
IgnoreSubsetConstraintSet
)
StealSideChainsMover
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
set_current_tag()
(in
SymFoldandDockMoveRbJumpMover
)
setup_for_derivatives()
(in
AmbiguousMultiConstraint
)
StealSideChainsMoverAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
set_current_tag()
(in
SymFoldandDockRbTrialMover
)
setup_for_derivatives()
(in
BindingSiteConstraint
)
StealSideChainsMoverCAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
set_current_tag()
(in
SymFoldandDockSlideTrialMover
)
setup_for_derivatives()
(in
COMCoordinateConstraint
)
steepness()
(in
Membrane_FAEmbed
)
set_current_tag()
(in
SymInterfaceSidechainMinMover
)
setup_for_derivatives()
(in
MaxSeqSepConstraintSet
)
steepness()
(in
Sigmoid
)
set_current_tag()
(in
SymSidechainMinMover
)
setup_for_derivatives()
(in
SequenceCoupling1BDConstraint
)
StemFinder
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
MPSymDockMover
)
setup_for_derivatives()
(in
SequenceCouplingConstraint
)
StemFinderAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
AlignPoseToInvrotTreeMover
)
setup_for_derivatives()
(in
AACompositionEnergy
)
StemFinderCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
StoreCombinedStoredTasksMover
)
setup_for_derivatives()
(in
NatbiasSecondaryStructureEnergy
)
StemFinderFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
StoreCompoundTaskMover
)
setup_for_derivatives()
(in
OtherContextScoreFunction
)
StemFinderFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
StoreTaskMover
)
setup_for_derivatives()
(in
PocketConstraint
)
StemFinderFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_current_tag()
(in
UnfoldedStateEnergyCalculatorMover
)
setup_for_derivatives()
(in
EnsembleEnergy
)
stems_are_neighbors()
(in
StemFinder
)
set_custom_angle()
(in
BackrubMover
)
setup_for_derivatives()
(in
InterchainEnvEnergy
)
stems_on_sse()
(in
StemFinder
)
set_custom_data()
(in
MutateFrameworkForCluster
)
setup_for_derivatives()
(in
InterchainPairEnergy
)
step()
(in
SymDofMoverSampler
)
set_cut()
(in
Loop
)
setup_for_derivatives()
(in
ResidualDipolarCouplingEnergyRigidSegments
)
step_count()
(in
TrajectoryRecorder
)
set_cutoff()
(in
AddCDRProfileSetsOperation
)
setup_for_derivatives()
(in
SpecialRotamerEnergy
)
step_data()
(in
SimpleDerivCheckResult
)
set_cutoff()
(in
ConstraintScoreCutoffFilter
)
setup_for_derivatives()
(in
PCS_Energy
)
step_size()
(in
SampleStrategyData
)
set_cutoff()
(in
ScoreCutoffFilter
)
setup_for_derivatives()
(in
PcsEnergy
)
step_size()
(in
RigidBodyDofRandomTransMover
)
set_cutoff_distance()
(in
RestrictToLoopsAndNeighbors
)
setup_for_derivatives()
(in
PCS_Energy_Ts1
)
step_size()
(in
RigidBodyDofSeqTransMover
)
set_cutoff_distance()
(in
RestrictToMoveMapChiOperation
)
setup_for_derivatives()
(in
PCS_Energy_Ts2
)
step_size()
(in
RigidBodyDofTransMover
)
set_cutoff_lr()
(in
CenHBPotential
)
setup_for_derivatives()
(in
PCS_Energy_Ts3
)
step_size()
(in
RigidBodyTransMover
)
set_cutoff_sr()
(in
CenHBPotential
)
setup_for_derivatives()
(in
PCS_Energy_Ts4
)
step_size()
(in
SymmetrySlider
)
set_cutpoint_closed_list()
(in
StepWiseWorkingParametersSetup
)
setup_for_derivatives()
(in
PDDFEnergy
)
step_size()
(in
GeomSampleInfo
)
set_cutpoint_closed_list()
(in
StepWiseBasicWorkingParameters
)
setup_for_derivatives_for_residue()
(in
DunbrackEnergy
)
stepwise
(in
rosetta.protocols
)
set_cutpoint_open_list()
(in
StepWiseBasicWorkingParameters
)
setup_for_derivatives_for_residue()
(in
CenRotDunEnergy
)
StepWiseBasicModelerOptions
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_cycles()
(in
ClassicAbinitio
)
setup_for_derivatives_for_residue()
(in
HPatchEnergy
)
StepWiseBasicModelerOptionsAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_cycles()
(in
ConstraintFragmentSampler
)
setup_for_derivatives_for_residue()
(in
SurfaceEnergy
)
StepWiseBasicModelerOptionsCAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_cycles()
(in
FoldConstraints
)
setup_for_derivatives_for_residue()
(in
CarbonHBondEnergy
)
StepWiseBasicOptions
(in
rosetta.protocols._protocols_
)
set_cycles()
(in
FragmentSampler
)
setup_for_derivatives_for_residue()
(in
ConstraintsEnergy
)
StepWiseBasicOptions
(in
rosetta.protocols.stepwise.options._protocols_stepwise_options_
)
set_cycles()
(in
JumpingFoldConstraintsWrapper
)
setup_for_derivatives_for_residue()
(in
FullatomCustomPairDistanceEnergy
)
StepWiseBasicOptionsAP
(in
rosetta.protocols.stepwise.options._protocols_stepwise_options_
)
set_cycles()
(in
KinematicAbinitio
)
setup_for_derivatives_for_residue()
(in
CentroidDisulfideEnergy
)
StepWiseBasicOptionsCAP
(in
rosetta.protocols.stepwise.options._protocols_stepwise_options_
)
set_cycles()
(in
MembraneAbinitio
)
setup_for_derivatives_for_residue()
(in
DisulfideMatchingEnergy
)
StepWiseBasicWorkingParameters
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
set_cycles()
(in
AnchoredGraftMover
)
setup_for_derivatives_for_residue()
(in
FullatomDisulfideEnergy
)
StepWiseBasicWorkingParametersAP
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
set_cycles()
(in
LoopClosure
)
setup_for_derivatives_for_residue()
(in
DNAChiEnergy
)
StepWiseBasicWorkingParametersCAP
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
set_cycles()
(in
StepWiseMonteCarloOptions
)
setup_for_derivatives_for_residue()
(in
DNATorsionEnergy
)
StepWiseClusterer
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_cycles_adjust()
(in
AbscriptStageMover
)
setup_for_derivatives_for_residue()
(in
FA_ElecEnergy
)
StepWiseClustererAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_cyd_res_at_termini()
(in
DisulfideInsertionMover
)
setup_for_derivatives_for_residue()
(in
FA_ElecEnergyAroAll
)
StepWiseClustererCAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_cyd_seqpos()
(in
DisulfideInsertionMover
)
setup_for_derivatives_for_residue()
(in
FA_ElecEnergyAroAro
)
StepWiseConnectionSampler
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_d()
(in
Residue
)
setup_for_derivatives_for_residue()
(in
FA_GrpElecEnergy
)
StepWiseConnectionSamplerAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_data()
(in
ResPairMinimizationData
)
setup_for_derivatives_for_residue()
(in
RNA_FA_ElecEnergy
)
StepWiseConnectionSamplerCAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_data()
(in
ResSingleMinimizationData
)
setup_for_derivatives_for_residue()
(in
ElecDensAllAtomCenEnergy
)
StepWiseCSA_JobDistributor
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_data()
(in
ElectronDensity
)
setup_for_derivatives_for_residue()
(in
ElecDensCenEnergy
)
StepWiseCSA_JobDistributorAP
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_data_annotations()
(in
RDAT
)
setup_for_derivatives_for_residue()
(in
ElecDensEnergy
)
StepWiseCSA_JobDistributorCAP
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_data_source()
(in
ConservativeDesignOperation
)
setup_for_derivatives_for_residue()
(in
FastDensEnergy
)
StepWiseJobDistributor
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_database_name()
(in
DatabaseJobInputter
)
setup_for_derivatives_for_residue()
(in
PattersonCorrEnergy
)
StepWiseJobDistributorAP
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_database_name()
(in
DatabaseJobOutputter
)
setup_for_derivatives_for_residue()
(in
ElecDensAtomwiseEnergy
)
StepWiseJobDistributorCAP
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_database_pq_schema()
(in
DatabaseJobInputter
)
setup_for_derivatives_for_residue()
(in
AnalyticEtableEnergy
)
StepWiseLegacyClusterer
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_database_pq_schema()
(in
DatabaseJobOutputter
)
setup_for_derivatives_for_residue()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
StepWiseLegacyClustererAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_db_path()
(in
LoopHashLibrary
)
setup_for_derivatives_for_residue()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
StepWiseLegacyClustererCAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_ddG_cutoff()
(in
PointMutScanDriver
)
setup_for_derivatives_for_residue()
(in
TableLookupEtableEnergy
)
StepWiseLegacyClustererSilentBased
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_ddG_filter()
(in
InterfaceBindingEnergyDensityFilter
)
setup_for_derivatives_for_residue()
(in
ContextDependentGeometricSolEnergy
)
StepWiseLegacyClustererSilentBasedAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_debug()
(in
AnchoredPerturbMover
)
setup_for_derivatives_for_residue()
(in
ContextIndependentGeometricSolEnergy
)
StepWiseLegacyClustererSilentBasedCAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_debug()
(in
AnchoredRefineMover
)
setup_for_derivatives_for_residue()
(in
ExactOccludedHbondSolEnergy
)
StepWiseMasterMover
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_debug()
(in
LoopRefineInnerCycle
)
setup_for_derivatives_for_residue()
(in
OccludedHbondSolEnergy
)
StepWiseMasterMoverAP
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_debug()
(in
AddGood2BPairEnergyRotamers
)
setup_for_derivatives_for_residue()
(in
OccludedHbondSolEnergy_onebody
)
StepWiseMasterMoverCAP
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_decoy_tag()
(in
SilentStruct
)
setup_for_derivatives_for_residue()
(in
HackAroEnergy
)
StepWiseMasterPacker
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
set_decoys_returned()
(in
Batch
)
setup_for_derivatives_for_residue()
(in
HBondEnergy
)
StepWiseMasterPackerAP
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
set_deep_optimization()
(in
GraftedStemOptimizer
)
setup_for_derivatives_for_residue()
(in
DDPscore
)
StepWiseMasterPackerCAP
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
set_default()
(in
AntibodyModelerProtocol
)
setup_for_derivatives_for_residue()
(in
FaMPEnvEnergy
)
StepWiseMinimizer
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_default()
(in
CloseOneCDRLoop
)
setup_for_derivatives_for_residue()
(in
FaMPEnvSmoothEnergy
)
StepWiseMinimizerAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_default()
(in
GraftCDRLoopsProtocol
)
setup_for_derivatives_for_residue()
(in
FaMPSolvEnergy
)
StepWiseMinimizerCAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_default()
(in
H3CterInsert
)
setup_for_derivatives_for_residue()
(in
MPCbetaEnergy
)
StepWiseModeler
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_default()
(in
LHRepulsiveRamp
)
setup_for_derivatives_for_residue()
(in
MPEnvEnergy
)
StepWiseModelerAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_default()
(in
ModelCDRH3
)
setup_for_derivatives_for_residue()
(in
MPNonHelixPenalty
)
StepWiseModelerCAP
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_default()
(in
AntibodyModeler
)
setup_for_derivatives_for_residue()
(in
MPPairEnergy
)
StepWiseModelerOptions
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default()
(in
CDRH3Modeler
)
setup_for_derivatives_for_residue()
(in
MPTerminiPenalty
)
StepWiseModelerOptionsAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default()
(in
CloseOneMover
)
setup_for_derivatives_for_residue()
(in
BurialEnergy
)
StepWiseModelerOptionsCAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default()
(in
GraftMover
)
setup_for_derivatives_for_residue()
(in
CartesianBondedEnergy
)
StepWiseMonteCarlo
(in
rosetta.protocols.stepwise.monte_carlo._protocols_stepwise_monte_carlo_
)
set_default()
(in
GraftOneMover
)
setup_for_derivatives_for_residue()
(in
CenHBEnergy
)
StepWiseMonteCarloAP
(in
rosetta.protocols.stepwise.monte_carlo._protocols_stepwise_monte_carlo_
)
set_default()
(in
LoopRlxMover
)
setup_for_derivatives_for_residue()
(in
CenPairEnergy
)
StepWiseMonteCarloCAP
(in
rosetta.protocols.stepwise.monte_carlo._protocols_stepwise_monte_carlo_
)
set_default()
(in
DockMCMCycle
)
setup_for_derivatives_for_residue()
(in
CenRotEnvEnergy
)
StepWiseMonteCarloJobDistributor
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_default()
(in
DockMinMover
)
setup_for_derivatives_for_residue()
(in
CenRotPairEnergy
)
StepWiseMonteCarloJobDistributorAP
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_default()
(in
DockTaskFactory
)
setup_for_derivatives_for_residue()
(in
ContextDependentLRTwoBodyEnergy
)
StepWiseMonteCarloJobDistributorCAP
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
set_default()
(in
DockingHighResLegacy
)
setup_for_derivatives_for_residue()
(in
ContextDependentOneBodyEnergy
)
StepWiseMonteCarloOptions
(in
rosetta.protocols.stepwise.monte_carlo.options._protocols_stepwise_monte_carlo_options_
)
set_default()
(in
DockingInitialPerturbation
)
setup_for_derivatives_for_residue()
(in
ContextDependentTwoBodyEnergy
)
StepWiseMonteCarloOptionsAP
(in
rosetta.protocols.stepwise.monte_carlo.options._protocols_stepwise_monte_carlo_options_
)
set_default()
(in
DockingLowRes
)
setup_for_derivatives_for_residue()
(in
ContextIndependentLRTwoBodyEnergy
)
StepWiseMonteCarloOptionsCAP
(in
rosetta.protocols.stepwise.monte_carlo.options._protocols_stepwise_monte_carlo_options_
)
set_default()
(in
DockingProtocol
)
setup_for_derivatives_for_residue()
(in
ContextIndependentOneBodyEnergy
)
StepWiseMove
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_default()
(in
EllipsoidalRandomizationMover
)
setup_for_derivatives_for_residue()
(in
ContextIndependentTwoBodyEnergy
)
StepWiseMoveAP
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_default()
(in
InterfaceSidechainMinMover
)
setup_for_derivatives_for_residue()
(in
CustomAtomPairEnergy
)
StepWiseMoveCAP
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_default()
(in
SidechainMinMover
)
setup_for_derivatives_for_residue()
(in
DNA_BaseEnergy
)
StepWiseMoveSelector
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_default()
(in
FlexPepDockingProtocol
)
setup_for_derivatives_for_residue()
(in
EnvEnergy
)
StepWiseMoveSelectorAP
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_default()
(in
StructAvrgMover
)
setup_for_derivatives_for_residue()
(in
EnvSmoothEnergy
)
StepWiseMoveSelectorCAP
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_default()
(in
ClassicRelax
)
setup_for_derivatives_for_residue()
(in
Fa_MbenvEnergy
)
StepWisePacker
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
set_default()
(in
CombinePoseMover
)
setup_for_derivatives_for_residue()
(in
Fa_MbsolvEnergy
)
StepWisePackerAP
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
set_default()
(in
SymDockProtocol
)
setup_for_derivatives_for_residue()
(in
FreeDOF_Energy
)
StepWisePackerCAP
(in
rosetta.protocols.stepwise.modeler.packer._protocols_stepwise_modeler_packer_
)
set_default()
(in
SymDockingHiRes
)
setup_for_derivatives_for_residue()
(in
GaussianOverlapEnergy
)
StepWisePoseAligner
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_default()
(in
SymDockingLowRes
)
setup_for_derivatives_for_residue()
(in
GenBornEnergy
)
StepWisePoseAlignerAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_default_allow_bondangles()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
GoapEnergy
)
StepWisePoseAlignerCAP
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_default_allow_bondlengths()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
HybridVDW_Energy
)
StepWiseProteinBackboneSampler
(in
rosetta.protocols.stepwise.modeler.protein._protocols_stepwise_modeler_protein_
)
set_default_allow_dihedrals()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
LK_BallEnergy
)
StepWiseProteinBackboneSamplerAP
(in
rosetta.protocols.stepwise.modeler.protein._protocols_stepwise_modeler_protein_
)
set_default_coordinate_settings()
(in
RelaxProtocolBase
)
setup_for_derivatives_for_residue()
(in
LK_PolarNonPolarEnergy
)
StepWiseProteinBackboneSamplerCAP
(in
rosetta.protocols.stepwise.modeler.protein._protocols_stepwise_modeler_protein_
)
set_default_crick_params_file()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
LK_hack
)
StepWiseProteinCCD_Closer
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_delta_omega0()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
LongRangeTwoBodyEnergy
)
StepWiseProteinCCD_CloserAP
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_delta_omega1_all()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
MMBondAngleEnergy
)
StepWiseProteinCCD_CloserCAP
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_delta_t()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
MMBondLengthEnergy
)
StepWiseProteinCCD_MultiPoseCloser
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_final_stream()
(in
Tracer
)
setup_for_derivatives_for_residue()
(in
MMLJEnergyInter
)
StepWiseProteinCCD_MultiPoseCloserAP
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_helix_length()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
MMLJEnergyIntra
)
StepWiseProteinCCD_MultiPoseCloserCAP
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_invert()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
MMTorsionEnergy
)
StepWiseProteinKIC_LoopBridger
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_mc()
(in
SymDockingLowRes
)
setup_for_derivatives_for_residue()
(in
MembraneCbetaEnergy
)
StepWiseProteinKIC_LoopBridgerAP
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_minimization_settings()
(in
RelaxProtocolBase
)
setup_for_derivatives_for_residue()
(in
MembraneCenPairEnergy
)
StepWiseProteinKIC_LoopBridgerCAP
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
set_default_minimizer()
(in
ClassicRelax
)
setup_for_derivatives_for_residue()
(in
MembraneEnvEnergy
)
StepWiseProteinMinimizer
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
set_default_minoption()
(in
CartesianNormalModeMover
)
setup_for_derivatives_for_residue()
(in
MembraneEnvSmoothEnergy
)
StepWiseProteinMinimizerAP
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
set_default_minoption()
(in
NormalModeRelaxMover
)
setup_for_derivatives_for_residue()
(in
NMerPSSMEnergy
)
StepWiseProteinMinimizerCAP
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
set_default_minoption()
(in
TorsionNormalModeMover
)
setup_for_derivatives_for_residue()
(in
NMerRefEnergy
)
StepWiseProteinModelerOptions
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default_move_map()
(in
SymDockingLowRes
)
setup_for_derivatives_for_residue()
(in
NMerSVMEnergy
)
StepWiseProteinModelerOptionsAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default_movemap()
(in
RelaxProtocolBase
)
setup_for_derivatives_for_residue()
(in
OmegaTetherEnergy
)
StepWiseProteinModelerOptionsCAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default_moveset_phase1()
(in
ClassicRelax
)
setup_for_derivatives_for_residue()
(in
OneBodyEnergy
)
StepWiseProteinPoseSetup
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
set_default_moveset_phase2()
(in
ClassicRelax
)
setup_for_derivatives_for_residue()
(in
P_AA_Energy
)
StepWiseProteinPoseSetupAP
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
set_default_moveset_phase3()
(in
ClassicRelax
)
setup_for_derivatives_for_residue()
(in
P_AA_pp_Energy
)
StepWiseProteinPoseSetupCAP
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
set_default_omega0()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
PairEnergy
)
StepWiseResiduePairScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_default_omega1()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
PeptideBondEnergy
)
StepWiseResiduePairScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_default_options()
(in
FoldConstraints
)
setup_for_derivatives_for_residue()
(in
PoissonBoltzmannEnergy
)
StepWiseResiduePairScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_default_options()
(in
JumpingFoldConstraintsWrapper
)
setup_for_derivatives_for_residue()
(in
ProClosureEnergy
)
StepWiseRNA_Clusterer
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_options()
(in
SymInterfaceSidechainMinMover
)
setup_for_derivatives_for_residue()
(in
Rama2BOffsetEnergy
)
StepWiseRNA_ClustererAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_options()
(in
SymSidechainMinMover
)
setup_for_derivatives_for_residue()
(in
RamachandranEnergy
)
StepWiseRNA_ClustererCAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_protocol()
(in
SymDockingLowRes
)
setup_for_derivatives_for_residue()
(in
RamachandranEnergy2B
)
StepWiseRNA_CombineLongLoopFilterer
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_default_r0()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
ReferenceEnergy
)
StepWiseRNA_CombineLongLoopFiltererAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_default_residue_name()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
ReferenceEnergyNoncanonical
)
StepWiseRNA_CombineLongLoopFiltererCAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_default_score_functions()
(in
LoopHashLibrary
)
setup_for_derivatives_for_residue()
(in
SequenceDependentRefEnergy
)
StepWiseRNA_CountStruct
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_default_scores()
(in
FoldConstraints
)
setup_for_derivatives_for_residue()
(in
ShortRangeTwoBodyEnergy
)
StepWiseRNA_CountStructAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_default_scores()
(in
JumpingFoldConstraintsWrapper
)
setup_for_derivatives_for_residue()
(in
SmoothCenPairEnergy
)
StepWiseRNA_CountStructCAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_default_settings()
(in
LoopMover_SlidingWindow
)
setup_for_derivatives_for_residue()
(in
SmoothEnvEnergy
)
StepWiseRNA_ModelerOptions
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default_settings()
(in
LoopMover_Perturb_CCD
)
setup_for_derivatives_for_residue()
(in
SuckerEnergy
)
StepWiseRNA_ModelerOptionsAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default_settings()
(in
LoopMover_Perturb_KIC
)
setup_for_derivatives_for_residue()
(in
SymmetricLigandEnergy
)
StepWiseRNA_ModelerOptionsCAP
(in
rosetta.protocols.stepwise.modeler.options._protocols_stepwise_modeler_options_
)
set_default_settings()
(in
LoopMover_Perturb_QuickCCD
)
setup_for_derivatives_for_residue()
(in
TwoBodyEnergy
)
StepWiseRNA_PoseSelectionAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_settings()
(in
LoopMover_Refine_Backrub
)
setup_for_derivatives_for_residue()
(in
UnfoldedStateEnergy
)
StepWiseRNA_PoseSelectionCAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_settings()
(in
LoopMover_Refine_CCD
)
setup_for_derivatives_for_residue()
(in
WaterAdductHBondEnergy
)
StepWiseRNA_PoseSetup
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_settings()
(in
LoopMover_Refine_KIC
)
setup_for_derivatives_for_residue()
(in
WaterAdductIntraEnergy
)
StepWiseRNA_PoseSetupAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_value()
(in
PerturbBundleOptions
)
setup_for_derivatives_for_residue()
(in
YHHPlanarityEnergy
)
StepWiseRNA_PoseSetupCAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_default_z0_offset()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
pHEnergy
)
StepWiseSampleAndScreen
(in
rosetta.protocols.stepwise._protocols_stepwise_
)
set_default_z1()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
SugarBackboneEnergy
)
StepWiseSampleAndScreenAP
(in
rosetta.protocols.stepwise._protocols_stepwise_
)
set_default_z1_offset()
(in
MakeBundle
)
setup_for_derivatives_for_residue()
(in
DFIRE_Energy
)
StepWiseSampleAndScreenCAP
(in
rosetta.protocols.stepwise._protocols_stepwise_
)
set_defaults()
(in
SOGFunc_Impl
)
setup_for_derivatives_for_residue()
(in
NVscore
)
StepWiseSamplerAny
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
SasaCalc
)
setup_for_derivatives_for_residue()
(in
OrbitalsScore
)
StepWiseSamplerAnyAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
AbrelaxMover
)
setup_for_derivatives_for_residue()
(in
RNA_BulgeEnergy
)
StepWiseSamplerAnyCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
InterfaceAnalyzerMover
)
setup_for_derivatives_for_residue()
(in
RNA_FullAtomStackingEnergy
)
StepWiseSamplerBase
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
ParatopeEpitopeSiteConstraintMover
)
setup_for_derivatives_for_residue()
(in
RNA_FullAtomVDW_BasePhosphate
)
StepWiseSamplerBaseAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
ParatopeSiteConstraintMover
)
setup_for_derivatives_for_residue()
(in
RNA_JR_SuiteEnergy
)
StepWiseSamplerBaseCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
AntibodyDesignMover
)
setup_for_derivatives_for_residue()
(in
RNA_LJ_BaseEnergy
)
StepWiseSamplerComb
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
CDRGraftDesignOptions
)
setup_for_derivatives_for_residue()
(in
RNA_Mg_Energy
)
StepWiseSamplerCombAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
CDRSeqDesignOptions
)
setup_for_derivatives_for_residue()
(in
RNA_PairwiseLowResolutionEnergy
)
StepWiseSamplerCombCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
AddCDRProfileSetsOperation
)
setup_for_derivatives_for_residue()
(in
RNA_SugarCloseEnergy
)
StepWiseSamplerOneTorsion
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
AddCDRProfilesOperation
)
setup_for_derivatives_for_residue()
(in
RNA_SuiteEnergy
)
StepWiseSamplerOneTorsionAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
DisableAntibodyRegionOperation
)
setup_for_derivatives_for_residue()
(in
RNA_TorsionEnergy
)
StepWiseSamplerOneTorsionCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
DisableCDRsOperation
)
setup_for_derivatives_for_residue()
(in
RNA_VDW_Energy
)
StepWiseSamplerOneValue
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
RestrictToCDRsAndNeighbors
)
setup_for_derivatives_for_residue()
(in
StackElecEnergy
)
StepWiseSamplerOneValueAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
Antibody
)
setup_for_derivatives_for_residue()
(in
RNA_DataBackboneEnergy
)
StepWiseSamplerOneValueCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
DockSetupMover
)
setup_for_derivatives_for_residue()
(in
symEnergy
)
StepWiseSamplerOneValueComb
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
TemperedDocking
)
setup_for_derivatives_for_residue()
(in
AACompositionEnergy
)
StepWiseSamplerOneValueCombAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
InterfaceFeatures
)
setup_for_derivatives_for_residue()
(in
InterchainEnvEnergy
)
StepWiseSamplerOneValueCombCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
AnchoredGraftMover
)
setup_for_derivatives_for_residue()
(in
InterchainPairEnergy
)
StepWiseSamplerSized
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
CCDEndsGraftMover
)
setup_for_derivatives_for_residue()
(in
SpecialRotamerEnergy
)
StepWiseSamplerSizedAny
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
FileJobOutputter
)
setup_for_derivatives_for_residue_pair()
(in
CarbonHBondEnergy
)
StepWiseSamplerSizedAnyAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
JobOutputter
)
setup_for_derivatives_for_residue_pair()
(in
ConstraintsEnergy
)
StepWiseSamplerSizedAnyCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
LoopHashSampler
)
setup_for_derivatives_for_residue_pair()
(in
FullatomCustomPairDistanceEnergy
)
StepWiseSamplerSizedAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
MPI_LoopHashRefine
)
setup_for_derivatives_for_residue_pair()
(in
CentroidDisulfideEnergy
)
StepWiseSamplerSizedCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
MPI_LoopHashRefine_Emperor
)
setup_for_derivatives_for_residue_pair()
(in
DisulfideMatchingEnergy
)
StepWiseSamplerSizedComb
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
MPI_LoopHashRefine_Master
)
setup_for_derivatives_for_residue_pair()
(in
FullatomDisulfideEnergy
)
StepWiseSamplerSizedCombAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
FASelectSlidingWindowLoopClosure
)
setup_for_derivatives_for_residue_pair()
(in
DNATorsionEnergy
)
StepWiseSamplerSizedCombCAP
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
IndependentLoopMover
)
setup_for_derivatives_for_residue_pair()
(in
FA_ElecEnergy
)
StepWiseSamplerType
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
set_defaults()
(in
MDBase
)
setup_for_derivatives_for_residue_pair()
(in
FA_ElecEnergyAroAll
)
StepWiseScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_defaults()
(in
Clusterer
)
setup_for_derivatives_for_residue_pair()
(in
FA_ElecEnergyAroAro
)
StepWiseScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_defaults()
(in
MPI_Refine_Emperor
)
setup_for_derivatives_for_residue_pair()
(in
FA_GrpElecEnergy
)
StepWiseScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_defaults()
(in
MPI_Refine_Master
)
setup_for_derivatives_for_residue_pair()
(in
RNA_FA_ElecEnergy
)
StepWiseScreenerType
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_defaults()
(in
MPI_Refinement
)
setup_for_derivatives_for_residue_pair()
(in
ElecDensAllAtomCenEnergy
)
StepWiseWorkingParameters
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
set_defaults()
(in
Serial_Refine
)
setup_for_derivatives_for_residue_pair()
(in
ElecDensCenEnergy
)
StepWiseWorkingParametersAP
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
set_defaults()
(in
CentroidRelax
)
setup_for_derivatives_for_residue_pair()
(in
ElecDensEnergy
)
StepWiseWorkingParametersCAP
(in
rosetta.protocols.stepwise.modeler.working_parameters._protocols_stepwise_modeler_working_parameters_
)
set_defaults()
(in
RelaxProtocolBase
)
setup_for_derivatives_for_residue_pair()
(in
FastDensEnergy
)
StepWiseWorkingParametersSetup
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_defaults()
(in
WorkUnit_BatchRelax_and_PostRescore
)
setup_for_derivatives_for_residue_pair()
(in
PattersonCorrEnergy
)
StepWiseWorkingParametersSetupAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_defaults()
(in
SymmetricMotifFilter
)
setup_for_derivatives_for_residue_pair()
(in
ElecDensAtomwiseEnergy
)
StepWiseWorkingParametersSetupCAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
set_defaults()
(in
ClassicFragmentMover
)
setup_for_derivatives_for_residue_pair()
(in
AnalyticEtableEnergy
)
stereochem()
(in
CarbohydrateInfo
)
set_defaults()
(in
DeleteChainsMover
)
setup_for_derivatives_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
stich_motif_in_scaffold_by_indexes_rotation_and_translation()
(in
MotifGraftMover
)
set_defaults()
(in
WobbleMover
)
setup_for_derivatives_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
still_interested()
(in
HedgeArchive
)
set_defaults()
(in
SetupNCSMover
)
setup_for_derivatives_for_residue_pair()
(in
TableLookupEtableEnergy
)
still_interested()
(in
IterativeAbrelax
)
set_defaults()
(in
ResidueProbDesignOperation
)
setup_for_derivatives_for_residue_pair()
(in
ContextDependentGeometricSolEnergy
)
still_interested()
(in
IterativeBase
)
set_defaults_from_cmdline()
(in
CanonicalSamplingMover
)
setup_for_derivatives_for_residue_pair()
(in
ContextIndependentGeometricSolEnergy
)
still_interested()
(in
IterativeCentroid
)
set_degree_vicinity()
(in
VicinitySamplingKinematicPerturber
)
setup_for_derivatives_for_residue_pair()
(in
OccludedHbondSolEnergy
)
still_interested()
(in
IterativeFullatom
)
set_delete_interface_native_sidechains()
(in
AnchoredDesignMover
)
setup_for_derivatives_for_residue_pair()
(in
HackAroEnergy
)
still_interested()
(in
AbstractArchiveBase
)
set_delta()
(in
Pose
)
setup_for_derivatives_for_residue_pair()
(in
HBondEnergy
)
still_interested()
(in
ArchiveBase
)
set_delta_omega0()
(in
MakeBundleHelix
)
setup_for_derivatives_for_residue_pair()
(in
DDPscore
)
still_interested()
(in
EvaluatedArchive
)
set_delta_omega0()
(in
BundleParameters
)
setup_for_derivatives_for_residue_pair()
(in
FaMPSolvEnergy
)
still_interested()
(in
NormalizedEvaluatedArchive
)
set_delta_omega1()
(in
BundleParameters
)
setup_for_derivatives_for_residue_pair()
(in
MPPairEnergy
)
still_interested()
(in
VarianceStatisticsArchive
)
set_delta_omega1_all()
(in
MakeBundleHelix
)
setup_for_derivatives_for_residue_pair()
(in
CartesianBondedEnergy
)
STM_STORED_TASKS
(in
Enum
)
set_delta_omega1_all()
(in
BundleParameters
)
setup_for_derivatives_for_residue_pair()
(in
CenHBEnergy
)
STM_STORED_TASKS
(in
CacheableDataType
)
set_delta_t()
(in
MakeBundleHelix
)
setup_for_derivatives_for_residue_pair()
(in
CenPairEnergy
)
STMStoredTask
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_delta_t()
(in
BundleParameters
)
setup_for_derivatives_for_residue_pair()
(in
CenRotPairEnergy
)
STMStoredTaskAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_delta_z1()
(in
BundleParameters
)
setup_for_derivatives_for_residue_pair()
(in
ContextDependentLRTwoBodyEnergy
)
STMStoredTaskCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_density_sc_scale_byres()
(in
EnergyMethodOptions
)
setup_for_derivatives_for_residue_pair()
(in
ContextDependentTwoBodyEnergy
)
StochasticFilter
(in
rosetta.protocols.filters._protocols_filters_
)
set_deriv_check_result()
(in
AtomTreeMultifunc
)
setup_for_derivatives_for_residue_pair()
(in
ContextIndependentLRTwoBodyEnergy
)
StochasticFilterAP
(in
rosetta.protocols.filters._protocols_filters_
)
set_deriv_check_result()
(in
CartesianMultifunc
)
setup_for_derivatives_for_residue_pair()
(in
ContextIndependentTwoBodyEnergy
)
StochasticFilterCAP
(in
rosetta.protocols.filters._protocols_filters_
)
set_deriv_check_result()
(in
NormalModeMultifunc
)
setup_for_derivatives_for_residue_pair()
(in
CustomAtomPairEnergy
)
StochasticFilterCreator
(in
rosetta.protocols.filters._protocols_filters_
)
set_derivative_graph()
(in
SymmetricEnergies
)
setup_for_derivatives_for_residue_pair()
(in
DNA_BaseEnergy
)
StochasticFilterCreatorAP
(in
rosetta.protocols.filters._protocols_filters_
)
set_design()
(in
DockingProtocol
)
setup_for_derivatives_for_residue_pair()
(in
Fa_MbsolvEnergy
)
StochasticFilterCreatorCAP
(in
rosetta.protocols.filters._protocols_filters_
)
set_design()
(in
RestrictToMoveMapChiOperation
)
setup_for_derivatives_for_residue_pair()
(in
GaussianOverlapEnergy
)
stop
(in
ResidueIdentifier
)
set_design_chains()
(in
DockTaskFactory
)
setup_for_derivatives_for_residue_pair()
(in
GenBornEnergy
)
stop
(in
rosetta.protocols.loops._protocols_loops_
)
set_design_framework_conservative()
(in
AntibodySeqDesignTFCreator
)
setup_for_derivatives_for_residue_pair()
(in
GoapEnergy
)
stop
(in
rosetta.protocols.loops
)
set_design_framework_conserved_res()
(in
AntibodySeqDesignTFCreator
)
setup_for_derivatives_for_residue_pair()
(in
HybridVDW_Energy
)
stop
(in
rosetta
)
set_design_H3_stem()
(in
AntibodySeqDesignTFCreator
)
setup_for_derivatives_for_residue_pair()
(in
LK_BallEnergy
)
stop()
(in
Frame
)
set_design_layer()
(in
SelectResiduesByLayer
)
setup_for_derivatives_for_residue_pair()
(in
LK_PolarNonPolarEnergy
)
stop()
(in
Edge
)
set_design_loop()
(in
RestrictToLoops
)
setup_for_derivatives_for_residue_pair()
(in
LK_hack
)
stop()
(in
MpiFileBuffer
)
set_design_neighbors()
(in
RestrictToLoopsAndNeighbors
)
setup_for_derivatives_for_residue_pair()
(in
LongRangeTwoBodyEnergy
)
stop()
(in
Interval
)
set_design_options()
(in
AddCDRProfilesOperation
)
setup_for_derivatives_for_residue_pair()
(in
MMBondAngleEnergy
)
stop()
(in
Loop
)
set_design_protocol()
(in
AntibodyDesignMover
)
setup_for_derivatives_for_residue_pair()
(in
MMBondLengthEnergy
)
stop()
(in
EnzdesLoopInfo
)
set_design_shell()
(in
PointMutationCalculator
)
setup_for_derivatives_for_residue_pair()
(in
MMLJEnergyInter
)
stop_at_closure()
(in
AnchoredGraftMover
)
set_design_shell()
(in
MatDesPointMutationCalculator
)
setup_for_derivatives_for_residue_pair()
(in
MMLJEnergyIntra
)
stop_atom()
(in
Edge
)
set_design_taskset()
(in
FlxbbDesign
)
setup_for_derivatives_for_residue_pair()
(in
MMTorsionEnergy
)
stop_before_condition()
(in
GreedyOptMutationMover
)
set_designable_residues()
(in
EnzdesSeqRecoveryCache
)
setup_for_derivatives_for_residue_pair()
(in
MembraneCenPairEnergy
)
stop_before_condition()
(in
ParetoOptMutationMover
)
set_desymmeterize()
(in
DunbrackSCSampler
)
setup_for_derivatives_for_residue_pair()
(in
PairEnergy
)
stop_before_condition()
(in
MatDesGreedyOptMutationMover
)
set_detect_bonds()
(in
DeleteChainsMover
)
setup_for_derivatives_for_residue_pair()
(in
PeptideBondEnergy
)
stop_pdb()
(in
EnzdesLoopInfo
)
set_detect_pseudobonds()
(in
DeleteChainsMover
)
setup_for_derivatives_for_residue_pair()
(in
PoissonBoltzmannEnergy
)
stop_pdb_chain()
(in
EnzdesLoopInfo
)
set_diagonal()
(in
xyzMatrix_Real
)
setup_for_derivatives_for_residue_pair()
(in
ProClosureEnergy
)
stop_res()
(in
RelativeSegmentFilter
)
set_diagonal()
(in
xyzMatrix_SSize
)
setup_for_derivatives_for_residue_pair()
(in
Rama2BOffsetEnergy
)
stop_res()
(in
RestrictToAlignedSegmentsOperation
)
set_diagonal()
(in
xyzMatrix_Size
)
setup_for_derivatives_for_residue_pair()
(in
RamachandranEnergy2B
)
stopping_condition()
(in
GreedyOptMutationMover
)
set_diagonal()
(in
xyzMatrix_T_float_T
)
setup_for_derivatives_for_residue_pair()
(in
ShortRangeTwoBodyEnergy
)
stopping_condition()
(in
ParetoOptMutationMover
)
set_diagonal()
(in
xyzMatrix_double
)
setup_for_derivatives_for_residue_pair()
(in
SmoothCenPairEnergy
)
stopping_condition()
(in
MatDesGreedyOptMutationMover
)
set_diagonal()
(in
xyzMatrix_float
)
setup_for_derivatives_for_residue_pair()
(in
SuckerEnergy
)
stopping_condition()
(in
GenericMonteCarloMover
)
set_difference()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
setup_for_derivatives_for_residue_pair()
(in
TwoBodyEnergy
)
store()
(in
FragmentLookup
)
set_dihedral
(in
perturber_effect
)
setup_for_derivatives_for_residue_pair()
(in
WaterAdductHBondEnergy
)
store()
(in
SilentStructStore
)
set_dihedral
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
setup_for_derivatives_for_residue_pair()
(in
DFIRE_Energy
)
store_active_energies()
(in
EnergyEdge
)
set_dihedral
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
setup_for_derivatives_for_residue_pair()
(in
OrbitalsScore
)
store_argv_in_file()
(in
SilentFileData
)
set_dihedral()
(in
CentroidRotamerSampleData
)
setup_for_derivatives_for_residue_pair()
(in
RNA_FullAtomStackingEnergy
)
store_classification()
(in
HeaderInformation
)
set_dimension()
(in
MultiDimensionalHistogram
)
setup_for_derivatives_for_residue_pair()
(in
RNA_JR_SuiteEnergy
)
store_compound()
(in
HeaderInformation
)
set_dimension_sizes()
(in
LexicographicalIterator
)
setup_for_derivatives_for_residue_pair()
(in
RNA_LJ_BaseEnergy
)
store_CSA_in_pose()
(in
rosetta.core.scoring._core_scoring_
)
set_dis()
(in
ResidueVicinityInfo
)
setup_for_derivatives_for_residue_pair()
(in
RNA_Mg_Energy
)
store_current_derivatives()
(in
LineMinimizationAlgorithm
)
set_dis_D1D2()
(in
ExternalGeomSampler
)
setup_for_derivatives_for_residue_pair()
(in
RNA_PairwiseLowResolutionEnergy
)
store_DC_in_pose()
(in
rosetta.core.scoring._core_scoring_
)
set_dis_D2D3()
(in
ExternalGeomSampler
)
setup_for_derivatives_for_residue_pair()
(in
RNA_SuiteEnergy
)
store_deposition_date()
(in
HeaderInformation
)
set_dis_U1D1_samples()
(in
ExternalGeomSampler
)
setup_for_derivatives_for_residue_pair()
(in
RNA_TorsionEnergy
)
store_experimental_technique()
(in
HeaderInformation
)
set_disable_packing_and_design()
(in
DisableAntibodyRegionOperation
)
setup_for_derivatives_for_residue_pair()
(in
RNA_VDW_Energy
)
store_experimental_techniques()
(in
HeaderInformation
)
set_disable_packing_and_design()
(in
DisableCDRsOperation
)
setup_for_derivatives_for_residue_pair()
(in
StackElecEnergy
)
store_H3_cter_fragment()
(in
CDRH3Modeler
)
set_disable_sampling_of_loop_takeoff()
(in
StepWiseProteinModelerOptions
)
setup_for_derivatives_for_residue_pair()
(in
RNA_DataBackboneEnergy
)
store_header_record()
(in
FileData
)
set_disabled()
(in
CheckPointer
)
setup_for_derivatives_for_residue_pair()
(in
symEnergy
)
store_heterogen_names()
(in
FileData
)
set_disallow_deletion_of_last_residue()
(in
AddOrDeleteMover
)
setup_for_derivatives_for_residue_pair()
(in
InterchainPairEnergy
)
store_idCode()
(in
HeaderInformation
)
set_disallow_quench()
(in
SimAnnealerBase
)
setup_for_dna()
(in
rosetta.protocols.relax._protocols_relax_
)
store_interaction_energy_first_node()
(in
LazyEdge
)
set_disallow_realign()
(in
StepWiseBasicModelerOptions
)
setup_for_lr2benmeth_minimization_for_respair()
(in
ScoreFunction
)
store_interaction_energy_second_node()
(in
LazyEdge
)
set_dist()
(in
NatbiasHelixPairPotential
)
setup_for_minimizing()
(in
DunbrackEnergy
)
store_keywords()
(in
HeaderInformation
)
set_dist_sigma2()
(in
NatbiasHelixPairPotential
)
setup_for_minimizing()
(in
CenRotDunEnergy
)
store_line()
(in
SingleFileBuffer
)
set_dist_to_connect_point()
(in
CountPairDataGeneric
)
setup_for_minimizing()
(in
HPatchEnergy
)
store_link_record()
(in
FileData
)
set_dist_to_connect_point()
(in
CountPairData_1_1
)
setup_for_minimizing()
(in
SurfaceEnergy
)
store_path()
(in
Motif
)
set_dist_to_connect_point()
(in
CountPairData_1_2
)
setup_for_minimizing()
(in
DockingScoreFunction
)
store_RDC_in_pose()
(in
rosetta.core.scoring._core_scoring_
)
set_dist_to_connect_point()
(in
CountPairData_1_3
)
setup_for_minimizing()
(in
MinScoreScoreFunction
)
store_RDC_ROHL_in_pose()
(in
rosetta.core.scoring._core_scoring_
)
set_dist_to_connect_point()
(in
GenericResidueConnectionData
)
setup_for_minimizing()
(in
MinimizationEdge
)
store_RDC_segments_in_pose()
(in
rosetta.protocols.scoring._protocols_scoring_
)
set_dist_wts()
(in
NatbiasHelixPairPotential
)
setup_for_minimizing()
(in
MinimizationNode
)
store_record()
(in
HeaderInformation
)
set_distance()
(in
CentroidRotamerSampleData
)
setup_for_minimizing()
(in
ScoreFunction
)
store_remark()
(in
Motif
)
set_distance()
(in
NeighborhoodResidueSelector
)
setup_for_minimizing()
(in
CarbonHBondEnergy
)
store_title()
(in
HeaderInformation
)
set_distance()
(in
SheetConstraintsRCG
)
setup_for_minimizing()
(in
ConstraintsEnergy
)
store_trie()
(in
RotamerSetBase
)
set_distance_cutoff()
(in
ContactMap
)
setup_for_minimizing()
(in
XtalMLEnergy
)
store_trie()
(in
RotamerSet
)
set_distinguish_pucker()
(in
StepWiseRNA_Clusterer
)
setup_for_minimizing()
(in
FullatomCustomPairDistanceEnergy
)
store_trie()
(in
RotamerSet_
)
set_distinguish_pucker()
(in
StepWiseRNA_ModelerOptions
)
setup_for_minimizing()
(in
CentroidDisulfideEnergy
)
store_trie()
(in
RotamerSubset
)
set_disulf()
(in
MRMover
)
setup_for_minimizing()
(in
DisulfideMatchingEnergy
)
store_trie()
(in
SymmetricRotamerSet_
)
set_disulfide_file()
(in
StepWiseProteinPoseSetup
)
setup_for_minimizing()
(in
FullatomDisulfideEnergy
)
store_trie()
(in
FlexbbRotamerSet
)
set_dlig_nmeg_limit()
(in
DaemonSet
)
setup_for_minimizing()
(in
DNAChiEnergy
)
store_trj()
(in
MDBase
)
set_dlig_nmeg_limit()
(in
PackDaemon
)
setup_for_minimizing()
(in
DNATorsionEnergy
)
StoreCombinedStoredTasksMover
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_add_delete()
(in
RNA_AddDeleteMonteCarlo
)
setup_for_minimizing()
(in
FA_ElecEnergy
)
StoreCombinedStoredTasksMoverAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_checks()
(in
StepWiseClusterer
)
setup_for_minimizing()
(in
FA_ElecEnergyAroAll
)
StoreCombinedStoredTasksMoverCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_dump_pdb()
(in
RNA_Minimizer
)
setup_for_minimizing()
(in
FA_ElecEnergyAroAro
)
StoreCombinedStoredTasksMoverCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_minimize()
(in
VirtualSugarSampler
)
setup_for_minimizing()
(in
FA_GrpElecEnergy
)
StoreCombinedStoredTasksMoverCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_not_sample_multiple_virtual_sugar()
(in
StepWiseRNA_ModelerOptions
)
setup_for_minimizing()
(in
RNA_FA_ElecEnergy
)
StoreCombinedStoredTasksMoverCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_screen()
(in
AlignRMSD_Screener
)
setup_for_minimizing()
(in
ElecDensAllAtomCenEnergy
)
StoreCompoundTaskMover
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_screens()
(in
VirtualSugarSampler
)
setup_for_minimizing()
(in
ElecDensCenEnergy
)
StoreCompoundTaskMoverAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_do_sfxn_eval_every_iteration()
(in
KinematicMover
)
setup_for_minimizing()
(in
ElecDensEnergy
)
StoreCompoundTaskMoverCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_high_res_scorefunction()
(in
AntibodyDesignModeler
)
setup_for_minimizing()
(in
FastDensEnergy
)
StoreCompoundTaskMoverCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_jump()
(in
LHRepulsiveRamp
)
setup_for_minimizing()
(in
PattersonCorrEnergy
)
StoreCompoundTaskMoverCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_low_res_scorefunction()
(in
AntibodyDesignModeler
)
setup_for_minimizing()
(in
ElecDensAtomwiseEnergy
)
StoreCompoundTaskMoverCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_mcm_protocol()
(in
DockingHighResLegacy
)
setup_for_minimizing()
(in
AnalyticEtableEnergy
)
stored_angle()
(in
MC_OneTorsion
)
set_dock_mcm_protocol()
(in
SymDockingHiRes
)
setup_for_minimizing()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
stored_task_names()
(in
MatDesPointMutationCalculator
)
set_dock_min()
(in
DockingProtocol
)
setup_for_minimizing()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
StoreTaskMover
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_min_protocol()
(in
DockingHighResLegacy
)
setup_for_minimizing()
(in
TableLookupEtableEnergy
)
StoreTaskMoverAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_min_protocol()
(in
SymDockingHiRes
)
setup_for_minimizing()
(in
FiberDiffractionEnergy
)
StoreTaskMoverCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_pert()
(in
DockingInitialPerturbation
)
setup_for_minimizing()
(in
FiberDiffractionEnergyDens
)
StoreTaskMoverCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_post_graft()
(in
AntibodyDesignMover
)
setup_for_minimizing()
(in
ContextDependentGeometricSolEnergy
)
StoreTaskMoverCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_ppk()
(in
DockingPrepackProtocol
)
setup_for_minimizing()
(in
ContextIndependentGeometricSolEnergy
)
StoreTaskMoverCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
set_dock_ppk()
(in
SymDockProtocol
)
setup_for_minimizing()
(in
ExactOccludedHbondSolEnergy
)
str()
(in
CacheableString
)
set_dock_ppk_protocol()
(in
DockingHighResLegacy
)
setup_for_minimizing()
(in
OccludedHbondSolEnergy
)
str()
(in
CavityBall
)
set_dock_ppk_protocol()
(in
SymDockingHiRes
)
setup_for_minimizing()
(in
OccludedHbondSolEnergy_onebody
)
str()
(in
OStringStream
)
set_dock_rounds()
(in
AntibodyDesignMover
)
setup_for_minimizing()
(in
HackAroEnergy
)
str()
(in
StringStream
)
set_dock_rtmin()
(in
SymDockProtocol
)
setup_for_minimizing()
(in
HBondEnergy
)
str_type()
(in
BBClaim
)
set_dock_score_func()
(in
LHRepulsiveRamp
)
setup_for_minimizing()
(in
DDPscore
)
str_type()
(in
CutClaim
)
set_dock_score_func()
(in
RefineBetaBarrel
)
setup_for_minimizing()
(in
LoopCloseEnergy
)
str_type()
(in
DofClaim
)
set_docking_frequency()
(in
StepWiseMoveSelector
)
setup_for_minimizing()
(in
FaMPEnvEnergy
)
str_type()
(in
JumpClaim
)
set_docking_frequency()
(in
StepWiseMonteCarloOptions
)
setup_for_minimizing()
(in
FaMPEnvSmoothEnergy
)
str_type()
(in
LegacyRootClaim
)
set_docking_highres_mover()
(in
DockingProtocol
)
setup_for_minimizing()
(in
FaMPSolvEnergy
)
str_type()
(in
SequenceClaim
)
set_docking_local_refine()
(in
DockingProtocol
)
setup_for_minimizing()
(in
MPCbetaEnergy
)
str_type()
(in
SymmetryClaim
)
set_dof()
(in
Conformation
)
setup_for_minimizing()
(in
MPEnvEnergy
)
Strand
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_dof()
(in
SymmetricConformation
)
setup_for_minimizing()
(in
MPLipoEnergy
)
strand
(in
SecondaryStructureType
)
set_dof()
(in
AtomTree
)
setup_for_minimizing()
(in
MPNonHelixPenalty
)
strand
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
set_dof()
(in
Atom
)
setup_for_minimizing()
(in
MPPairEnergy
)
strand
(in
rosetta.protocols.loops.loop_closure.ccd
)
set_dof()
(in
BondedAtom
)
setup_for_minimizing()
(in
MPTMProjPenalty
)
strand()
(in
SS_Info2
)
set_dof()
(in
JumpAtom
)
setup_for_minimizing()
(in
MPTerminiPenalty
)
strand1()
(in
BetaAlphaBetaMotif
)
set_dof()
(in
Pose
)
setup_for_minimizing()
(in
BurialEnergy
)
strand1()
(in
HSSTriplet
)
set_dof()
(in
ProtectedConformation
)
setup_for_minimizing()
(in
CartesianBondedEnergy
)
strand2()
(in
BetaAlphaBetaMotif
)
set_DOF()
(in
TorsionDOFMover
)
setup_for_minimizing()
(in
CenHBEnergy
)
strand2()
(in
HSSTriplet
)
set_dofs()
(in
SymmetryInfo
)
setup_for_minimizing()
(in
CenPairEnergy
)
strand_assembly
(in
rosetta.protocols.features
)
set_dofs_from_tag()
(in
MakeBundle
)
setup_for_minimizing()
(in
CenRotEnvEnergy
)
strand_fraction()
(in
SecondaryStructure
)
set_domain()
(in
AllowInsert
)
setup_for_minimizing()
(in
CenRotPairEnergy
)
strand_id()
(in
SS_Info2
)
set_double
(in
rosetta.utility._utility_
)
setup_for_minimizing()
(in
ChainbreakEnergy
)
strand_order()
(in
Sheet
)
set_double_msg()
(in
SimulateMPIMessage
)
setup_for_minimizing()
(in
ChemicalShiftAnisotropyEnergy
)
strand_pairing()
(in
StrandPairingSet
)
set_doubles_msg()
(in
SimulateMPIMessage
)
setup_for_minimizing()
(in
ContactOrderEnergy
)
strand_pairing()
(in
StrandPairingSet
)
set_downstream_algorithm()
(in
BuildSet
)
setup_for_minimizing()
(in
ContextDependentLRTwoBodyEnergy
)
strand_pairing_set()
(in
Dssp
)
set_downstream_builder()
(in
DownstreamRMSEvaluator
)
setup_for_minimizing()
(in
ContextDependentOneBodyEnergy
)
strand_pairing_stats()
(in
Templates
)
set_downstream_builder()
(in
PDBWriter
)
setup_for_minimizing()
(in
ContextDependentTwoBodyEnergy
)
strand_pairings()
(in
Template
)
set_downstream_builder()
(in
SameSequenceAndDSPositionGrouper
)
setup_for_minimizing()
(in
ContextIndependentLRTwoBodyEnergy
)
strand_pairings()
(in
StrandPairingSet
)
set_downstream_builder()
(in
SingleDownstreamResidueWriter
)
setup_for_minimizing()
(in
ContextIndependentOneBodyEnergy
)
strand_pairings()
(in
BluePrint
)
set_downstream_builder()
(in
UpstreamDownstreamCollisionFilter
)
setup_for_minimizing()
(in
ContextIndependentTwoBodyEnergy
)
strand_weight()
(in
PairingStatistics
)
set_downstream_master()
(in
DownstreamCoordinateKinemageWriter
)
setup_for_minimizing()
(in
CustomAtomPairEnergy
)
StrandAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_downstream_master()
(in
SingleDownstreamResidueWriter
)
setup_for_minimizing()
(in
D2H_SA_Energy
)
StrandBundleFeatures
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_downstream_orientation_atoms()
(in
MatcherTask
)
setup_for_minimizing()
(in
DNA_BaseEnergy
)
StrandBundleFeaturesAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_downstream_pose()
(in
Matcher
)
setup_for_minimizing()
(in
DipolarCouplingEnergy
)
StrandBundleFeaturesCAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_downstream_pose()
(in
MatcherTask
)
setup_for_minimizing()
(in
DirectReadoutEnergy
)
StrandBundleFeaturesCreator
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_downstream_pose()
(in
DownstreamRMSEvaluator
)
setup_for_minimizing()
(in
DistanceChainbreakEnergy
)
StrandBundleFeaturesCreatorAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_downstream_pose()
(in
UpstreamDownstreamCollisionFilter
)
setup_for_minimizing()
(in
EnergyMethod
)
StrandBundleFeaturesCreatorCAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_downstream_restype()
(in
SecondaryMatcherToDownstreamResidue
)
setup_for_minimizing()
(in
EnvEnergy
)
StrandCAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_downstream_writer()
(in
WriteKinemageOutputter
)
setup_for_minimizing()
(in
EnvSmoothEnergy
)
StrandConstraints
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_downstream_writer()
(in
WriteUpstreamCoordinateKinemage
)
setup_for_minimizing()
(in
Fa_MbenvEnergy
)
StrandConstraintsAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_drift()
(in
GenericMonteCarloMover
)
setup_for_minimizing()
(in
Fa_MbsolvEnergy
)
StrandConstraintsCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_ds_atom_ids_needed()
(in
TargetRotamerCoords
)
setup_for_minimizing()
(in
FreeDOF_Energy
)
StrandFragment
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_dSASA_cutoff()
(in
InterfaceFeatures
)
setup_for_minimizing()
(in
GaussianOverlapEnergy
)
StrandFragmentAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_dsbuilder()
(in
DownstreamAlgorithm
)
setup_for_minimizing()
(in
GenBornEnergy
)
StrandFragmentCAP
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
set_dswriter()
(in
WriteUpstreamHitKinemage
)
setup_for_minimizing()
(in
GoapEnergy
)
StrandPairing
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
set_dt()
(in
MDBase
)
setup_for_minimizing()
(in
HybridVDW_Energy
)
StrandPairing
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_dump()
(in
StepWiseProteinPoseSetup
)
setup_for_minimizing()
(in
IntermolEnergy
)
StrandPairingAP
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
set_dump()
(in
StepWiseBasicModelerOptions
)
setup_for_minimizing()
(in
LK_BallEnergy
)
StrandPairingAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_dump()
(in
RNA_HelixAssembler
)
setup_for_minimizing()
(in
LK_PolarNonPolarEnergy
)
StrandPairingCAP
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
set_dump_pdb()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing()
(in
LK_hack
)
StrandPairingCAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_dump_weights_file()
(in
LoopJumpFoldCst
)
setup_for_minimizing()
(in
LinearChainbreakEnergy
)
StrandPairingSet
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
set_edge()
(in
RNA_Datum
)
setup_for_minimizing()
(in
LongRangeTwoBodyEnergy
)
StrandPairingSet
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_edge_index()
(in
DoubleLazyEdge
)
setup_for_minimizing()
(in
MMBondAngleEnergy
)
StrandPairingSetAP
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
set_edge_weight()
(in
DensePDEdge
)
setup_for_minimizing()
(in
MMBondLengthEnergy
)
StrandPairingSetAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_edge_weight()
(in
DoubleDensePDEdge
)
setup_for_minimizing()
(in
MMLJEnergyInter
)
StrandPairingSetCAP
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
set_edge_weight()
(in
DoubleLazyEdge
)
setup_for_minimizing()
(in
MMLJEnergyIntra
)
StrandPairingSetCAP
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
set_edge_weight()
(in
EdgeBase
)
setup_for_minimizing()
(in
MMTorsionEnergy
)
Strands
(in
rosetta.core.scoring._core_scoring_
)
set_edge_weight()
(in
FASTEREdge
)
setup_for_minimizing()
(in
MembraneCbetaEnergy
)
strands()
(in
SS_Info
)
set_edge_weight()
(in
FixedBBEdge
)
setup_for_minimizing()
(in
MembraneCenPairEnergy
)
strands()
(in
SS_Info2
)
set_edge_weight()
(in
InteractionGraphBase
)
setup_for_minimizing()
(in
MembraneEnvEnergy
)
StrandsAP
(in
rosetta.core.scoring._core_scoring_
)
set_edge_weight()
(in
LazyEdge
)
setup_for_minimizing()
(in
MembraneEnvPenalties
)
StrandsCAP
(in
rosetta.core.scoring._core_scoring_
)
set_edge_weight()
(in
LinearMemEdge
)
setup_for_minimizing()
(in
MembraneEnvSmoothEnergy
)
StrandTwistingMover
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_edge_weight()
(in
OnTheFlyEdge
)
setup_for_minimizing()
(in
MembraneLipo
)
StrandTwistingMoverAP
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_edge_weight()
(in
PDEdge
)
setup_for_minimizing()
(in
MissingEnergy
)
StrandTwistingMoverCAP
(in
rosetta.protocols.rbsegment_relax._protocols_rbsegment_relax_
)
set_edge_weight()
(in
PrecomputedPairEnergiesEdge
)
setup_for_minimizing()
(in
NMerPSSMEnergy
)
Strategy
(in
rosetta.core.conformation._core_conformation_
)
set_edge_weight()
(in
SymmLinearMemEdge
)
setup_for_minimizing()
(in
NMerRefEnergy
)
strategy()
(in
SampleStrategyData
)
set_edge_weight()
(in
SymmMinimalistEdge
)
setup_for_minimizing()
(in
NMerSVMEnergy
)
stream()
(in
ResourceStream
)
set_edge_weight()
(in
SymmOnTheFlyEdge
)
setup_for_minimizing()
(in
OmegaTetherEnergy
)
stream()
(in
FileStream
)
set_edge_weight()
(in
FlexbbEdge
)
setup_for_minimizing()
(in
OneBodyEnergy
)
stream()
(in
NullStream
)
set_edge_weight()
(in
MinimalistFlexbbEdge
)
setup_for_minimizing()
(in
OtherPoseEnergy
)
stream()
(in
StringResourceStream
)
set_edge_weight()
(in
OTFFlexbbEdge
)
setup_for_minimizing()
(in
P_AA_Energy
)
streams_from_cmd_line()
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
set_effective_sequence_separation()
(in
MultiConstraint
)
setup_for_minimizing()
(in
P_AA_pp_Energy
)
strength()
(in
JumpClaim
)
set_elec_sigmoidal_die_params()
(in
EnergyMethodOptions
)
setup_for_minimizing()
(in
PackStatEnergy
)
strength()
(in
TorsionClaim
)
set_else()
(in
IfThenFilter
)
setup_for_minimizing()
(in
PairEnergy
)
strength()
(in
VirtResClaim
)
set_empty_voxel_color()
(in
Bool3DGridKinemageWriter
)
setup_for_minimizing()
(in
PeptideBondEnergy
)
strength()
(in
XYZClaim
)
set_enable_design()
(in
FastRelax
)
setup_for_minimizing()
(in
PoissonBoltzmannEnergy
)
stretch()
(in
DNABasepair
)
set_end()
(in
WorkUnit_LoopHash
)
setup_for_minimizing()
(in
ProClosureEnergy
)
strict_column_mode()
(in
SilentFileData
)
set_end()
(in
WorkUnit_LoopHash
)
setup_for_minimizing()
(in
ProQ_Energy
)
strict_looprelax_checks()
(in
Loops
)
set_end()
(in
RBResidueRange
)
setup_for_minimizing()
(in
RG_Energy_Fast
)
stride()
(in
MetricRecorder
)
set_end_bias()
(in
ClassicFragmentMover
)
setup_for_minimizing()
(in
RG_LocalEnergy
)
stride()
(in
TrajectoryRecorder
)
set_energy()
(in
RotData
)
setup_for_minimizing()
(in
RMS_Energy
)
string2float()
(in
rosetta.utility._utility_
)
set_energy_method_options()
(in
ScoreFunction
)
setup_for_minimizing()
(in
Rama2BOffsetEnergy
)
string2int()
(in
rosetta.utility._utility_
)
set_energy_reportstep()
(in
MDBase
)
setup_for_minimizing()
(in
RamachandranEnergy
)
string2Real()
(in
rosetta.utility._utility_
)
set_energy_state()
(in
PBLifetimeCache
)
setup_for_minimizing()
(in
RamachandranEnergy2B
)
string2Size()
(in
rosetta.utility._utility_
)
set_energy_terms()
(in
UnfoldedStateEnergyCalculatorJobDistributor
)
setup_for_minimizing()
(in
ReferenceEnergy
)
string2uint()
(in
rosetta.utility._utility_
)
set_energy_terms()
(in
UnfoldedStateEnergyCalculatorMPIWorkPoolJobDistributor
)
setup_for_minimizing()
(in
ReferenceEnergyNoncanonical
)
STRING_MAP
(in
Enum
)
set_energy_to_beat()
(in
VIP_Mover
)
setup_for_minimizing()
(in
ResidualDipolarCouplingEnergy
)
STRING_MAP
(in
CacheableDataType
)
set_ensemble1()
(in
DockingEnsemblePrepackProtocol
)
setup_for_minimizing()
(in
ResidualDipolarCouplingEnergy_Rohl
)
string_msg()
(in
SimulateMPIMessage
)
set_ensemble1()
(in
DockingLowResEnsemble
)
setup_for_minimizing()
(in
SA_Energy
)
string_properties()
(in
ResidueProperties
)
set_ensemble1()
(in
DockingProtocol
)
setup_for_minimizing()
(in
SecondaryStructureEnergy
)
string_refine()
(in
LoopMoverFromCommandLine
)
set_ensemble2()
(in
DockingEnsemblePrepackProtocol
)
setup_for_minimizing()
(in
SequenceDependentRefEnergy
)
string_rep()
(in
Contact
)
set_ensemble2()
(in
DockingLowResEnsemble
)
setup_for_minimizing()
(in
ShortRangeTwoBodyEnergy
)
string_rep()
(in
ContactPartner
)
set_ensemble2()
(in
DockingProtocol
)
setup_for_minimizing()
(in
SmoothCenPairEnergy
)
string_split()
(in
rosetta.utility._utility_
)
set_ensemble_diversity()
(in
ShakeStructureMover
)
setup_for_minimizing()
(in
SmoothEnvEnergy
)
string_split_multi_delim()
(in
rosetta.utility._utility_
)
set_entity_correspondence()
(in
PackDaemon
)
setup_for_minimizing()
(in
SuckerEnergy
)
string_split_simple()
(in
rosetta.utility._utility_
)
set_entity_element()
(in
Entity
)
setup_for_minimizing()
(in
SymmetricLigandEnergy
)
string_to_compound_token()
(in
HeaderInformation
)
set_entity_resfile()
(in
DaemonSet
)
setup_for_minimizing()
(in
TwoBodyEnergy
)
string_to_experimental_technique()
(in
HeaderInformation
)
set_entity_template()
(in
DiscreteRandomizer
)
setup_for_minimizing()
(in
UnfoldedStateEnergy
)
string_to_int()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_entity_template()
(in
EntityRandomizer
)
setup_for_minimizing()
(in
WaterAdductHBondEnergy
)
string_to_real()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_entity_template()
(in
GeneticAlgorithm
)
setup_for_minimizing()
(in
WaterAdductIntraEnergy
)
string_to_sha1()
(in
rosetta.utility._utility_
)
set_entity_template()
(in
GeneticAlgorithmBase
)
setup_for_minimizing()
(in
WholeStructureEnergy
)
string_value()
(in
SilentEnergy
)
set_entity_template()
(in
Mutate1Randomizer
)
setup_for_minimizing()
(in
YHHPlanarityEnergy
)
stringafteroption()
(in
rosetta.basic.options._basic_options_
)
set_entity_template()
(in
PositionSpecificRandomizer
)
setup_for_minimizing()
(in
pHEnergy
)
StringResourceStream
(in
rosetta.basic.resource_manager.locator._basic_resource_manager_locator_
)
set_enumerate()
(in
StepWiseMonteCarloOptions
)
setup_for_minimizing()
(in
SugarBackboneEnergy
)
StringResourceStreamAP
(in
rosetta.basic.resource_manager.locator._basic_resource_manager_locator_
)
set_enumerate_ligand_rotamers()
(in
MatcherTask
)
setup_for_minimizing()
(in
DFIRE_Energy
)
StringResourceStreamCAP
(in
rosetta.basic.resource_manager.locator._basic_resource_manager_locator_
)
set_enz_input_data()
(in
MatcherTask
)
setup_for_minimizing()
(in
NVscore
)
StringStream
(in
rosetta.utility._utility_
)
set_enzdes_loops_file()
(in
EnzdesCacheableObserver
)
setup_for_minimizing()
(in
OrbitalsScore
)
STRIPEHASH
(in
rosetta
)
set_enzio_param()
(in
EnzCstTemplateRes
)
setup_for_minimizing()
(in
HolesEnergy
)
STRIPEHASH
(in
rosetta.core.conformation
)
set_epitope_residues()
(in
AntibodyDesignMover
)
setup_for_minimizing()
(in
HolesEnergyRes
)
STRIPEHASH
(in
rosetta.core.conformation._core_conformation_
)
set_eps()
(in
RotData
)
setup_for_minimizing()
(in
SurfEnergy
)
STRIPEHASH
(in
Strategy
)
set_epsilon()
(in
Pose
)
setup_for_minimizing()
(in
SurfVolEnergy
)
StrongWolfe()
(in
StrongWolfeLineMinimization
)
set_equiv()
(in
RotamerLinks
)
setup_for_minimizing()
(in
RG_Energy_RNA
)
StrongWolfeLineMinimization
(in
rosetta.core.optimization._core_optimization_
)
set_equiv()
(in
NCSResMapping
)
setup_for_minimizing()
(in
RNA_BulgeEnergy
)
StrongWolfeLineMinimizationAP
(in
rosetta.core.optimization._core_optimization_
)
set_erraser()
(in
StepWiseMonteCarloOptions
)
setup_for_minimizing()
(in
RNA_FullAtomStackingEnergy
)
StrongWolfeLineMinimizationCAP
(in
rosetta.core.optimization._core_optimization_
)
set_error_out_on_complex_cycles()
(in
LoopGraph
)
setup_for_minimizing()
(in
RNA_FullAtomVDW_BasePhosphate
)
struct_from_job()
(in
LazySilentFileJobInputter
)
set_errorfull_deltaE_threshold()
(in
DensePDInteractionGraph
)
setup_for_minimizing()
(in
RNA_JR_SuiteEnergy
)
struct_from_job()
(in
SilentFileJobInputter
)
set_errorfull_deltaE_threshold()
(in
DoubleDensePDInteractionGraph
)
setup_for_minimizing()
(in
RNA_LJ_BaseEnergy
)
struct_ids_from_tag()
(in
rosetta.protocols.features._protocols_features_
)
set_errorfull_deltaE_threshold()
(in
DoubleLazyInteractionGraph
)
setup_for_minimizing()
(in
RNA_Mg_Energy
)
StructAvrgMover
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_errorfull_deltaE_threshold()
(in
FASTERInteractionGraph
)
setup_for_minimizing()
(in
RNA_PairwiseLowResolutionEnergy
)
StructAvrgMoverAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_errorfull_deltaE_threshold()
(in
InteractionGraphBase
)
setup_for_minimizing()
(in
RNA_SugarCloseEnergy
)
StructAvrgMoverCAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
set_errorfull_deltaE_threshold()
(in
LazyInteractionGraph
)
setup_for_minimizing()
(in
RNA_SuiteEnergy
)
StructPerturberCM
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_errorfull_deltaE_threshold()
(in
LinearMemoryInteractionGraph
)
setup_for_minimizing()
(in
RNA_TorsionEnergy
)
StructPerturberCMAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_errorfull_deltaE_threshold()
(in
PDInteractionGraph
)
setup_for_minimizing()
(in
RNA_VDW_Energy
)
StructPerturberCMCAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_errorfull_deltaE_threshold()
(in
SymmLinearMemoryInteractionGraph
)
setup_for_minimizing()
(in
StackElecEnergy
)
StructPerturberCMCreator
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_errorfull_deltaE_threshold()
(in
SymmMinimalistInteractionGraph
)
setup_for_minimizing()
(in
RNA_ChemicalShiftEnergy
)
StructPerturberCMCreatorAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_errorfull_deltaE_threshold()
(in
MinimalistFlexbbInteractionGraph
)
setup_for_minimizing()
(in
RNA_ChemicalMappingEnergy
)
StructPerturberCMCreatorCAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
set_etable()
(in
ScoreFunction
)
setup_for_minimizing()
(in
RNA_DataBackboneEnergy
)
STRUCTURAL_CONSERVATION
(in
Enum
)
set_euler_alpha_values()
(in
RigidBodyStepWiseSampler
)
setup_for_minimizing()
(in
FastSAXSEnergy
)
STRUCTURAL_CONSERVATION
(in
CacheableDataType
)
set_euler_alpha_values()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
SAXSEnergy
)
StructuralSimilarityEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_euler_angle_bin_max()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
symEnergy
)
StructuralSimilarityEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_euler_angle_bin_min()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
SymmetricScoreFunction
)
StructuralSimilarityEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_euler_angle_bin_size()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
AACompositionEnergy
)
structure()
(in
RDAT
)
set_euler_bin_widths()
(in
HitHasher
)
setup_for_minimizing()
(in
NatbiasSecondaryStructureEnergy
)
structure_has_moved()
(in
Energies
)
set_euler_bin_widths()
(in
HitNeighborFinder
)
setup_for_minimizing()
(in
OtherContextScoreFunction
)
structure_list()
(in
SilentFileData
)
set_euler_bin_widths()
(in
MatchCounter
)
setup_for_minimizing()
(in
EnsembleEnergy
)
structure_moved()
(in
Conformation
)
set_euler_bin_widths()
(in
OccupiedSpaceHash
)
setup_for_minimizing()
(in
InterchainEnvEnergy
)
StructureDependentCalculator
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
set_euler_gamma_values()
(in
RigidBodyStepWiseSampler
)
setup_for_minimizing()
(in
InterchainPairEnergy
)
StructureDependentCalculatorAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
set_euler_gamma_values()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
ResidualDipolarCouplingEnergyRigidSegments
)
StructureDependentCalculatorCAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
set_euler_z_bin_max()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
SpecialRotamerEnergy
)
StructureFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_euler_z_bin_min()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
PCS_Energy
)
StructureFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_euler_z_bin_size()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
PcsEnergy
)
StructureFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_euler_z_values()
(in
RigidBodyStepWiseSampler
)
setup_for_minimizing()
(in
PCS_Energy_Ts1
)
StructureFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_euler_z_values()
(in
RigidBodyStepWiseSamplerValueRange
)
setup_for_minimizing()
(in
PCS_Energy_Ts2
)
StructureFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_evaluate_local()
(in
EvaluatedArchive
)
setup_for_minimizing()
(in
PCS_Energy_Ts3
)
StructureFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_evaluation()
(in
Protocol
)
setup_for_minimizing()
(in
PCS_Energy_Ts4
)
StructureFileNames
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_evaluation()
(in
SlidingWindowLoopClosure
)
setup_for_minimizing()
(in
PDDFEnergy
)
StructureFileNamesAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_evaluator()
(in
MatchProcessor
)
setup_for_minimizing_for_node()
(in
DockingScoreFunction
)
StructureFileNamesCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_evaluators()
(in
JobOutputter
)
setup_for_minimizing_for_node()
(in
MinScoreScoreFunction
)
StructureOutputMode
(in
PlaceProbeMover
)
set_evaluators()
(in
EvaluatedArchive
)
setup_for_minimizing_for_node()
(in
ScoreFunction
)
StructureRestrictor
(in
rosetta.protocols.moves._protocols_moves_
)
set_exclude_polar_atoms_by_charge()
(in
SasaCalc
)
setup_for_minimizing_for_node()
(in
SymmetricScoreFunction
)
StructureRestrictorAP
(in
rosetta.protocols.moves._protocols_moves_
)
set_excluded_positions()
(in
HelixNCapperMover
)
setup_for_minimizing_for_node()
(in
OtherContextScoreFunction
)
StructureRestrictorCAP
(in
rosetta.protocols.moves._protocols_moves_
)
set_excluded_positions()
(in
VIP_Mover
)
setup_for_minimizing_for_residue()
(in
DunbrackEnergy
)
structures()
(in
RDAT
)
set_excluded_residues()
(in
Pool_RMSD
)
setup_for_minimizing_for_residue()
(in
CenRotDunEnergy
)
StructureScoresFeatures
(in
rosetta.protocols.features._protocols_features_
)
set_existing_residue()
(in
FlexbbRotamerSet
)
setup_for_minimizing_for_residue()
(in
HPatchEnergy
)
StructureScoresFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
set_exit_if_missing_heavy_atoms()
(in
FileDataOptions
)
setup_for_minimizing_for_residue()
(in
SurfaceEnergy
)
StructureScoresFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
set_expand_loop_takeoff()
(in
StepWiseProteinModelerOptions
)
setup_for_minimizing_for_residue()
(in
CarbonHBondEnergy
)
StructureScoresFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
set_expand_loop_takeoff()
(in
StepWiseProteinBackboneSampler
)
setup_for_minimizing_for_residue()
(in
ConstraintSet
)
StructureScoresFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
set_expecting_n_ligands()
(in
ZincSiteFinder
)
setup_for_minimizing_for_residue()
(in
ConstraintsEnergy
)
StructureScoresFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
set_experimental_ddg()
(in
DDGMutationOptEData
)
setup_for_minimizing_for_residue()
(in
FullatomCustomPairDistanceEnergy
)
StructureSimilarityEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_experimental_ddg_bind()
(in
DDGBindOptEData
)
setup_for_minimizing_for_residue()
(in
CentroidDisulfideEnergy
)
StructureSimilarityEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_explicit_hydrogen_included_radii_set()
(in
SasaCalc
)
setup_for_minimizing_for_residue()
(in
DisulfideMatchingEnergy
)
StructureSimilarityEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_expression()
(in
UnaryExpression
)
setup_for_minimizing_for_residue()
(in
FullatomDisulfideEnergy
)
StructureStoreManager
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
set_extend_h3()
(in
ModelCDRH3
)
setup_for_minimizing_for_residue()
(in
DNAChiEnergy
)
StructureStoreManagerAP
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
set_extend_h3_before_modeling()
(in
AntibodyModelerProtocol
)
setup_for_minimizing_for_residue()
(in
DNATorsionEnergy
)
StructureStoreManagerCAP
(in
rosetta.core.indexed_structure_store._core_indexed_structure_store_
)
set_extended()
(in
Loop
)
setup_for_minimizing_for_residue()
(in
FA_ElecEnergy
)
Stub
(in
rosetta.core.kinematics._core_kinematics_
)
set_extended()
(in
Loops
)
setup_for_minimizing_for_residue()
(in
FA_ElecEnergyAroAll
)
STUB_APPLIER
(in
rosetta.protocols.stepwise.screener
)
set_extended_torsions()
(in
rosetta.protocols.loops._protocols_loops_
)
setup_for_minimizing_for_residue()
(in
FA_ElecEnergyAroAro
)
STUB_APPLIER
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_extended_torsions()
(in
LoopMover
)
setup_for_minimizing_for_residue()
(in
FA_GrpElecEnergy
)
STUB_APPLIER
(in
StepWiseScreenerType
)
set_extended_torsions()
(in
LoopMover_Perturb_KIC
)
setup_for_minimizing_for_residue()
(in
RNA_FA_ElecEnergy
)
stub_atom()
(in
Adduct
)
set_extended_torsions_and_idealize_loops()
(in
rosetta.protocols.loops._protocols_loops_
)
setup_for_minimizing_for_residue()
(in
ElecDensAllAtomCenEnergy
)
stub_atom()
(in
AtomICoor
)
set_external_position()
(in
EnzCstTemplateRes
)
setup_for_minimizing_for_residue()
(in
ElecDensCenEnergy
)
stub_atom1()
(in
Adduct
)
set_external_position_for_resA()
(in
EnzConstraintParameters
)
setup_for_minimizing_for_residue()
(in
ElecDensEnergy
)
stub_atom1()
(in
AtomICoor
)
set_external_position_for_resA_in_parameter_block()
(in
EnzConstraintIO
)
setup_for_minimizing_for_residue()
(in
FastDensEnergy
)
stub_atom1()
(in
Atom
)
set_external_position_for_resB()
(in
EnzConstraintParameters
)
setup_for_minimizing_for_residue()
(in
PattersonCorrEnergy
)
stub_atom1()
(in
BondedAtom
)
set_external_position_for_resB_in_parameter_block()
(in
EnzConstraintIO
)
setup_for_minimizing_for_residue()
(in
ElecDensAtomwiseEnergy
)
stub_atom1()
(in
JumpAtom
)
set_extra_beta()
(in
RNA_SuiteStepWiseSampler
)
setup_for_minimizing_for_residue()
(in
AnalyticEtableEnergy
)
stub_atom1_id()
(in
Atom
)
set_extra_chi()
(in
StepWiseRNA_ModelerOptions
)
setup_for_minimizing_for_residue()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
stub_atom1_id()
(in
Atom_
)
set_extra_chi()
(in
RNA_ChiStepWiseSampler
)
setup_for_minimizing_for_residue()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
stub_atom2()
(in
Adduct
)
set_extra_chi()
(in
RNA_KIC_Sampler
)
setup_for_minimizing_for_residue()
(in
TableLookupEtableEnergy
)
stub_atom2()
(in
AtomICoor
)
set_extra_chi()
(in
RNA_NucleosideStepWiseSampler
)
setup_for_minimizing_for_residue()
(in
ContextDependentGeometricSolEnergy
)
stub_atom2()
(in
Atom
)
set_extra_chi()
(in
RNA_SuiteStepWiseSampler
)
setup_for_minimizing_for_residue()
(in
ContextIndependentGeometricSolEnergy
)
stub_atom2()
(in
BondedAtom
)
set_extra_data_1()
(in
WorkUnitBase
)
setup_for_minimizing_for_residue()
(in
ExactOccludedHbondSolEnergy
)
stub_atom2()
(in
JumpAtom
)
set_extra_data_2()
(in
WorkUnitBase
)
setup_for_minimizing_for_residue()
(in
OccludedHbondSolEnergy
)
stub_atom2_id()
(in
Atom
)
set_extra_data_3()
(in
WorkUnitBase
)
setup_for_minimizing_for_residue()
(in
OccludedHbondSolEnergy_onebody
)
stub_atom2_id()
(in
Atom_
)
set_extra_epsilon()
(in
RNA_KIC_Sampler
)
setup_for_minimizing_for_residue()
(in
HackAroEnergy
)
stub_atom3()
(in
Adduct
)
set_extra_epsilon()
(in
RNA_SuiteStepWiseSampler
)
setup_for_minimizing_for_residue()
(in
HBondEnergy
)
stub_atom3()
(in
AtomICoor
)
set_extra_loose_rep_cutoff()
(in
RNA_AtrRepChecker
)
setup_for_minimizing_for_residue()
(in
DDPscore
)
stub_atom3()
(in
Atom
)
set_extra_minimize_chi_res()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing_for_residue()
(in
FaMPEnvEnergy
)
stub_atom3()
(in
BondedAtom
)
set_extra_minimize_chi_res()
(in
RNA_Minimizer
)
setup_for_minimizing_for_residue()
(in
FaMPEnvSmoothEnergy
)
stub_atom3()
(in
JumpAtom
)
set_extra_minimize_res()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing_for_residue()
(in
FaMPSolvEnergy
)
stub_atom3_id()
(in
Atom
)
set_extra_minimize_res()
(in
RNA_Minimizer
)
setup_for_minimizing_for_residue()
(in
MPCbetaEnergy
)
stub_atom3_id()
(in
Atom_
)
set_extra_minimize_res()
(in
StepWiseProteinPoseSetup
)
setup_for_minimizing_for_residue()
(in
MPEnvEnergy
)
stub_defined()
(in
Atom
)
set_extra_parameter()
(in
AtomType
)
setup_for_minimizing_for_residue()
(in
MPNonHelixPenalty
)
stub_defined()
(in
Atom_
)
set_extra_penalty()
(in
SequenceShiftMover
)
setup_for_minimizing_for_residue()
(in
MPPairEnergy
)
STUB_DISTANCE
(in
rosetta.protocols.stepwise.screener
)
set_extra_samples()
(in
RotamerSet_
)
setup_for_minimizing_for_residue()
(in
MPTerminiPenalty
)
STUB_DISTANCE
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_extrapolate_scale()
(in
NormalModeRelaxMover
)
setup_for_minimizing_for_residue()
(in
BurialEnergy
)
STUB_DISTANCE
(in
StepWiseScreenerType
)
set_fa_cst_weight()
(in
MRMover
)
setup_for_minimizing_for_residue()
(in
CartesianBondedEnergy
)
stub_from_id()
(in
Conformation
)
set_fa_dun_cutoff()
(in
BuildSet
)
setup_for_minimizing_for_residue()
(in
CenHBEnergy
)
stub_from_id()
(in
AtomTree
)
set_fa_dun_cutoff_for_constraint()
(in
Matcher
)
setup_for_minimizing_for_residue()
(in
CenPairEnergy
)
stub_from_id()
(in
Pose
)
set_fa_score_function()
(in
CentroidRelax
)
setup_for_minimizing_for_residue()
(in
CenRotEnvEnergy
)
stub_from_points()
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_fa_scorefunction()
(in
AnchoredGraftMover
)
setup_for_minimizing_for_residue()
(in
CenRotPairEnergy
)
stub_id_to_named_stub_id()
(in
rosetta.core.conformation._core_conformation_
)
set_fa_scorefunction()
(in
CCDEndsGraftMover
)
setup_for_minimizing_for_residue()
(in
ContextDependentLRTwoBodyEnergy
)
stub_id_to_named_stub_id()
(in
rosetta.core.pose._core_pose_
)
set_fa_scorefunction()
(in
CartesianSampler
)
setup_for_minimizing_for_residue()
(in
ContextDependentOneBodyEnergy
)
stub_minimize_movers()
(in
PlaceStubMover
)
set_fa_scorefxn()
(in
FloppyTailMover
)
setup_for_minimizing_for_residue()
(in
ContextDependentTwoBodyEnergy
)
stub_sets()
(in
StubScoreFilter
)
set_fa_scorefxn()
(in
LoopModeler
)
setup_for_minimizing_for_residue()
(in
ContextIndependentLRTwoBodyEnergy
)
stub_sets()
(in
PlaceSimultaneouslyMover
)
set_facet_alpha()
(in
Bool3DGridKinemageWriter
)
setup_for_minimizing_for_residue()
(in
ContextIndependentOneBodyEnergy
)
stub_sets()
(in
PlacementAuctionMover
)
set_facet_color()
(in
Bool3DGridKinemageWriter
)
setup_for_minimizing_for_residue()
(in
ContextIndependentTwoBodyEnergy
)
stub_sets()
(in
PlacementMinimizationMover
)
set_facet_master()
(in
Bool3DGridKinemageWriter
)
setup_for_minimizing_for_residue()
(in
CustomAtomPairEnergy
)
stub_tgt_angle()
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_fallback_strategy()
(in
AddCDRProfilesOperation
)
setup_for_minimizing_for_residue()
(in
DNA_BaseEnergy
)
stub_to_points()
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_farray_from_sso()
(in
SpecialSegmentsObserver
)
setup_for_minimizing_for_residue()
(in
EnvEnergy
)
StubAP
(in
rosetta.core.kinematics._core_kinematics_
)
set_fast()
(in
RNA_KIC_Sampler
)
setup_for_minimizing_for_residue()
(in
EnvSmoothEnergy
)
StubApplier
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_fast()
(in
RNA_NucleosideStepWiseSampler
)
setup_for_minimizing_for_residue()
(in
Fa_MbenvEnergy
)
StubApplierAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_fast()
(in
RNA_SuiteStepWiseSampler
)
setup_for_minimizing_for_residue()
(in
Fa_MbsolvEnergy
)
StubApplierCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_fcen10()
(in
CenListInfo
)
setup_for_minimizing_for_residue()
(in
FreeDOF_Energy
)
StubCAP
(in
rosetta.core.kinematics._core_kinematics_
)
set_fcen12()
(in
CenListInfo
)
setup_for_minimizing_for_residue()
(in
GaussianOverlapEnergy
)
StubDistanceScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_fcen6()
(in
CenListInfo
)
setup_for_minimizing_for_residue()
(in
GenBornEnergy
)
StubDistanceScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_figure_out_prepack_res()
(in
StepWiseModeler
)
setup_for_minimizing_for_residue()
(in
GoapEnergy
)
StubDistanceScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_file_option()
(in
rosetta.basic._basic_
)
setup_for_minimizing_for_residue()
(in
HybridVDW_Energy
)
StubGenerator
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_file_option()
(in
rosetta.basic.options._basic_options_
)
setup_for_minimizing_for_residue()
(in
LK_BallEnergy
)
StubGeneratorAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_file_reading_token()
(in
Loops
)
setup_for_minimizing_for_residue()
(in
LK_PolarNonPolarEnergy
)
StubGeneratorCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_file_vector_option()
(in
rosetta.basic._basic_
)
setup_for_minimizing_for_residue()
(in
LK_hack
)
StubID
(in
rosetta.core.id._core_id_
)
set_file_vector_option()
(in
rosetta.basic.options._basic_options_
)
setup_for_minimizing_for_residue()
(in
LongRangeTwoBodyEnergy
)
StubIDAP
(in
rosetta.core.id._core_id_
)
set_filename()
(in
SilentFileData
)
setup_for_minimizing_for_residue()
(in
MMBondAngleEnergy
)
StubIDCAP
(in
rosetta.core.id._core_id_
)
set_filename()
(in
Anchor
)
setup_for_minimizing_for_residue()
(in
MMBondLengthEnergy
)
StubMode
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
set_filename_root()
(in
DnaInterfacePacker
)
setup_for_minimizing_for_residue()
(in
MMLJEnergyInter
)
stubs_intra_residue()
(in
JumpClaim
)
set_filenames()
(in
PDBPoseInputStream
)
setup_for_minimizing_for_residue()
(in
MMLJEnergyIntra
)
StubScoreFilter
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter()
(in
GatherPosesMover
)
setup_for_minimizing_for_residue()
(in
MMTorsionEnergy
)
StubScoreFilterAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter()
(in
DockMCMProtocol
)
setup_for_minimizing_for_residue()
(in
MembraneCbetaEnergy
)
StubScoreFilterCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter()
(in
HotspotStub
)
setup_for_minimizing_for_residue()
(in
MembraneCenPairEnergy
)
StubScoreFilterCreator
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter()
(in
FilterReporterMover
)
setup_for_minimizing_for_residue()
(in
MembraneEnvEnergy
)
StubScoreFilterCreatorAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_bin()
(in
GeneralizedKIC
)
setup_for_minimizing_for_residue()
(in
MembraneEnvSmoothEnergy
)
StubScoreFilterCreatorCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_by_lj()
(in
MatchCollisionFilter
)
setup_for_minimizing_for_residue()
(in
NMerPSSMEnergy
)
StubScoreLoopsFilter
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_by_phipsi()
(in
LoopHashSampler
)
setup_for_minimizing_for_residue()
(in
NMerRefEnergy
)
StubScoreLoopsFilterAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_chain_closure()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing_for_residue()
(in
NMerSVMEnergy
)
StubScoreLoopsFilterCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_chain_closure_distance()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing_for_residue()
(in
OmegaTetherEnergy
)
StubScoreLoopsFilterCreator
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_chain_closure_halfway()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing_for_residue()
(in
OneBodyEnergy
)
StubScoreLoopsFilterCreatorAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_during_design()
(in
FlxbbDesign
)
setup_for_minimizing_for_residue()
(in
P_AA_Energy
)
StubScoreLoopsFilterCreatorCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
set_filter_for_previous_clash()
(in
StepWiseRNA_CombineLongLoopFilterer
)
setup_for_minimizing_for_residue()
(in
P_AA_pp_Energy
)
StubStatus
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_filter_for_previous_contact()
(in
StepWiseRNA_CombineLongLoopFilterer
)
setup_for_minimizing_for_residue()
(in
PairEnergy
)
sub_rank()
(in
MPIMultiCommJobDistributor
)
set_filter_lores_base_pairs()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing_for_residue()
(in
PeptideBondEnergy
)
sub_to_full()
(in
FullModelInfo
)
set_filter_lores_base_pairs_early()
(in
RNA_DeNovoProtocol
)
setup_for_minimizing_for_residue()
(in
PoissonBoltzmannEnergy
)
sub_to_full()
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
set_filter_native_big_bins()
(in
StepWiseProteinModelerOptions
)
setup_for_minimizing_for_residue()
(in
ProClosureEnergy
)
sub_to_full()
(in
StepWiseBasicWorkingParameters
)
set_filter_native_big_bins()
(in
StepWiseProteinBackboneSampler
)
setup_for_minimizing_for_residue()
(in
Rama2BOffsetEnergy
)
subbin_cdf_i()
(in
BinTransitionData
)
set_filter_native_big_bins()
(in
StepWiseMonteCarloOptions
)
setup_for_minimizing_for_residue()
(in
RamachandranEnergy
)
subbin_cdf_iplus1()
(in
BinTransitionData
)
set_filter_omega()
(in
AnchoredDesignMover
)
setup_for_minimizing_for_residue()
(in
RamachandranEnergy2B
)
subbin_end_i()
(in
BinTransitionData
)
set_filter_resnum()
(in
GeneralizedKIC
)
setup_for_minimizing_for_residue()
(in
ReferenceEnergy
)
subbin_end_iplus1()
(in
BinTransitionData
)
set_filter_SASA()
(in
AnchoredDesignMover
)
setup_for_minimizing_for_residue()
(in
ReferenceEnergyNoncanonical
)
subbin_start_i()
(in
BinTransitionData
)
set_filter_score()
(in
AnchoredDesignMover
)
setup_for_minimizing_for_residue()
(in
SequenceDependentRefEnergy
)
subbin_start_iplus1()
(in
BinTransitionData
)
set_filter_structs()
(in
DesignTask
)
setup_for_minimizing_for_residue()
(in
ShortRangeTwoBodyEnergy
)
subbin_type_i()
(in
BinTransitionData
)
set_filter_templates()
(in
FoldTreeHybridize
)
setup_for_minimizing_for_residue()
(in
SmoothCenPairEnergy
)
subbin_type_iplus1()
(in
BinTransitionData
)
set_filter_type()
(in
GeneralizedKICfilter
)
setup_for_minimizing_for_residue()
(in
SmoothEnvEnergy
)
subfilter()
(in
ReplicateFilter
)
set_filter_user_alignment_res()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue()
(in
SuckerEnergy
)
SUBMOTIF
(in
rosetta.protocols.stepwise.monte_carlo.mover
)
set_filter_virtual_res_list()
(in
StepWiseRNA_Clusterer
)
setup_for_minimizing_for_residue()
(in
SymmetricLigandEnergy
)
SUBMOTIF
(in
AttachmentType
)
set_filters()
(in
KinematicMover
)
setup_for_minimizing_for_residue()
(in
TwoBodyEnergy
)
SUBMOTIF
(in
rosetta.protocols.stepwise.monte_carlo.mover._protocols_stepwise_monte_carlo_mover_
)
set_final_fold_tree()
(in
KinematicControl
)
setup_for_minimizing_for_residue()
(in
UnfoldedStateEnergy
)
submotif
(in
rosetta.protocols.stepwise.monte_carlo
)
set_finer_sampling_at_chain_closure()
(in
StepWiseRNA_ModelerOptions
)
setup_for_minimizing_for_residue()
(in
WaterAdductHBondEnergy
)
submotif_frequency()
(in
StepWiseMoveSelector
)
set_finish_scorefxn()
(in
RNA_HelixAssembler
)
setup_for_minimizing_for_residue()
(in
WaterAdductIntraEnergy
)
submotif_frequency()
(in
StepWiseMonteCarloOptions
)
set_finish_stage()
(in
IterativeBase
)
setup_for_minimizing_for_residue()
(in
YHHPlanarityEnergy
)
submotif_library()
(in
AddOrDeleteMover
)
set_first()
(in
trace
)
setup_for_minimizing_for_residue()
(in
pHEnergy
)
submotif_library()
(in
StepWiseMoveSelector
)
set_first_cycle()
(in
DockMCMProtocol
)
setup_for_minimizing_for_residue()
(in
SugarBackboneEnergy
)
submotif_tag()
(in
StepWiseMove
)
set_first_expression()
(in
BinaryExpression
)
setup_for_minimizing_for_residue()
(in
DFIRE_Energy
)
SubMotifLibrary
(in
rosetta.protocols.stepwise.monte_carlo.submotif._protocols_stepwise_monte_carlo_submotif_
)
set_fitness()
(in
Entity
)
setup_for_minimizing_for_residue()
(in
NVscore
)
SubMotifLibraryAP
(in
rosetta.protocols.stepwise.monte_carlo.submotif._protocols_stepwise_monte_carlo_submotif_
)
set_five_prime_chain_break_res()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue()
(in
OrbitalsScore
)
SubMotifLibraryCAP
(in
rosetta.protocols.stepwise.monte_carlo.submotif._protocols_stepwise_monte_carlo_submotif_
)
set_five_prime_phosphate_res()
(in
MultiPhosphateSampler
)
setup_for_minimizing_for_residue()
(in
RNA_BulgeEnergy
)
submover()
(in
IteratedConvergenceMover
)
set_fix_backbone()
(in
CoupledMover
)
setup_for_minimizing_for_residue()
(in
RNA_FullAtomStackingEnergy
)
subprio()
(in
ClaimStrength
)
set_fix_ligands()
(in
RBSegmentRelax
)
setup_for_minimizing_for_residue()
(in
RNA_FullAtomVDW_BasePhosphate
)
SubroutineMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_fixed_energies()
(in
MinimizationGraph
)
setup_for_minimizing_for_residue()
(in
RNA_JR_SuiteEnergy
)
SubroutineMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_fixed_res()
(in
StepWiseProteinMinimizer
)
setup_for_minimizing_for_residue()
(in
RNA_LJ_BaseEnergy
)
SubroutineMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_fixed_res()
(in
StepWiseProteinPoseSetup
)
setup_for_minimizing_for_residue()
(in
RNA_Mg_Energy
)
SubroutineMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_fixed_res()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue()
(in
RNA_PairwiseLowResolutionEnergy
)
SubroutineMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_fixed_res()
(in
StepWiseBasicWorkingParameters
)
setup_for_minimizing_for_residue()
(in
RNA_SugarCloseEnergy
)
SubroutineMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
set_fixed_residues()
(in
StepWiseProteinBackboneSampler
)
setup_for_minimizing_for_residue()
(in
RNA_SuiteEnergy
)
subset()
(in
HotspotStubSet
)
set_fixed_stub()
(in
LocalCoordinateConstraint
)
setup_for_minimizing_for_residue()
(in
RNA_TorsionEnergy
)
subset_mapping
(in
rosetta.utility._utility_
)
set_flags()
(in
FlexPepDockingPoseMetrics
)
setup_for_minimizing_for_residue()
(in
RNA_VDW_Energy
)
subset_mappingAP
(in
rosetta.utility._utility_
)
set_flank_relax()
(in
RefineOneCDRLoop
)
setup_for_minimizing_for_residue()
(in
StackElecEnergy
)
subset_mappingCAP
(in
rosetta.utility._utility_
)
set_flank_residue_min()
(in
AntibodyModelerProtocol
)
setup_for_minimizing_for_residue()
(in
RNA_DataBackboneEnergy
)
subset_to_intervals()
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
set_flank_residue_min()
(in
LoopMover_Refine_CCD
)
setup_for_minimizing_for_residue()
(in
symEnergy
)
Subsitution
(in
FlexbbInteractionGraph
)
set_flank_residue_min()
(in
LoopMover_Refine_KIC
)
setup_for_minimizing_for_residue()
(in
IgnoreSubsetConstraintSet
)
substitute_residue()
(in
rosetta.protocols.dna._protocols_dna_
)
set_flank_residue_size()
(in
AntibodyModelerProtocol
)
setup_for_minimizing_for_residue()
(in
MaxSeqSepConstraintSet
)
SUBTRACT
(in
rosetta.protocols.simple_filters
)
set_flank_size()
(in
GraftOneCDRLoop
)
setup_for_minimizing_for_residue()
(in
AACompositionEnergy
)
SUBTRACT
(in
Operation
)
set_flank_size()
(in
RefineOneCDRLoop
)
setup_for_minimizing_for_residue()
(in
InterchainEnvEnergy
)
SUBTRACT
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_flat_score_multiply()
(in
SymmetryInfo
)
setup_for_minimizing_for_residue()
(in
InterchainPairEnergy
)
subtract()
(in
Bool3DGrid
)
set_flip_rate()
(in
RNA_MC_Sugar
)
setup_for_minimizing_for_residue()
(in
SpecialRotamerEnergy
)
subtract_chi_angles()
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
set_float
(in
rosetta.utility._utility_
)
setup_for_minimizing_for_residue_pair()
(in
CarbonHBondEnergy
)
subtract_degree_angles()
(in
rosetta.basic._basic_
)
set_floating_base()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
ConstraintSet
)
subtract_diagonal()
(in
xyzMatrix_Real
)
set_floating_base()
(in
RNA_BaseCentroidChecker
)
setup_for_minimizing_for_residue_pair()
(in
ConstraintsEnergy
)
subtract_diagonal()
(in
xyzMatrix_SSize
)
set_floating_base()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue_pair()
(in
FullatomCustomPairDistanceEnergy
)
subtract_diagonal()
(in
xyzMatrix_Size
)
set_floating_base_anchor_res()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
CentroidDisulfideEnergy
)
subtract_diagonal()
(in
xyzMatrix_T_float_T
)
set_floating_base_anchor_res()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue_pair()
(in
DisulfideMatchingEnergy
)
subtract_diagonal()
(in
xyzMatrix_double
)
set_focus()
(in
NeighborhoodResidueSelector
)
setup_for_minimizing_for_residue_pair()
(in
FullatomDisulfideEnergy
)
subtract_diagonal()
(in
xyzMatrix_float
)
set_focus_selector()
(in
NeighborhoodResidueSelector
)
setup_for_minimizing_for_residue_pair()
(in
DNATorsionEnergy
)
subtract_neighbors_mass()
(in
TenANeighborNode
)
set_focused_geomcst_id()
(in
SecondaryMatcherToDownstreamResidue
)
setup_for_minimizing_for_residue_pair()
(in
FA_ElecEnergy
)
subtract_radian_angles()
(in
rosetta.basic._basic_
)
set_fold_tree()
(in
RNA_SilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
FA_ElecEnergyAroAll
)
SUBTRACT_SYMBOL
(in
rosetta.numeric.expression_parser
)
set_fold_tree()
(in
RigidBodyMotionMover
)
setup_for_minimizing_for_residue_pair()
(in
FA_ElecEnergyAroAro
)
SUBTRACT_SYMBOL
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
set_fold_tree()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue_pair()
(in
FA_GrpElecEnergy
)
SUBTRACT_SYMBOL
(in
TokenType
)
set_fold_tree_and_chainbreaks()
(in
JumpSample
)
setup_for_minimizing_for_residue_pair()
(in
RNA_FA_ElecEnergy
)
SubtractExpression
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
set_fold_tree_and_cutpoints()
(in
AnchoredDesignMover
)
setup_for_minimizing_for_residue_pair()
(in
ElecDensAllAtomCenEnergy
)
SubtractExpressionAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
set_fold_tree_from_loops()
(in
LoopMover_Refine_CCD
)
setup_for_minimizing_for_residue_pair()
(in
ElecDensCenEnergy
)
SubtractExpressionCAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
set_fold_tree_from_symm_data()
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
setup_for_minimizing_for_residue_pair()
(in
ElecDensEnergy
)
subtype()
(in
ClaimStrength
)
set_fold_tree_in_pose()
(in
JumpSample
)
setup_for_minimizing_for_residue_pair()
(in
FastDensEnergy
)
subunit_index()
(in
SymmetryInfo
)
set_fold_tree_io()
(in
ImportPoseOptions
)
setup_for_minimizing_for_residue_pair()
(in
PattersonCorrEnergy
)
subunits()
(in
SymmetryInfo
)
set_fold_tree_root()
(in
SetTorsion
)
setup_for_minimizing_for_residue_pair()
(in
ElecDensAtomwiseEnergy
)
subunits_moved_by_jump()
(in
SymmData
)
set_foldtree()
(in
EllipsoidalRandomizationMover
)
setup_for_minimizing_for_residue_pair()
(in
AnalyticEtableEnergy
)
Success
(in
rosetta.protocols.loops.loop_mover
)
set_foldtree()
(in
SeedFoldTree
)
setup_for_minimizing_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
Success
(in
LoopResult
)
set_force_align()
(in
StepWiseLegacyClusterer
)
setup_for_minimizing_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
Success
(in
rosetta.protocols.loops.loop_mover._protocols_loops_loop_mover_
)
set_force_align()
(in
StepWiseLegacyClustererSilentBased
)
setup_for_minimizing_for_residue_pair()
(in
TableLookupEtableEnergy
)
success()
(in
InsertChunkMover
)
set_force_anti_chi_res_list()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
ContextDependentGeometricSolEnergy
)
success()
(in
CCDLoopClosureMover
)
set_force_anti_chi_res_list()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue_pair()
(in
ContextIndependentGeometricSolEnergy
)
success()
(in
VirtualSugarJustInTimeInstantiator
)
set_force_bitflip()
(in
PDBSilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
GeometricSolEnergyEvaluator
)
success()
(in
StepWiseMasterMover
)
set_force_bitflip()
(in
BinarySilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
OccludedHbondSolEnergy
)
success_message
(in
DaemonSetMessage
)
set_force_bitflip()
(in
RNA_SilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
HackAroEnergy
)
success_message
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_force_bitflip()
(in
RigidBodySilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
HBondEnergy
)
success_message
(in
rosetta.protocols.pack_daemon
)
set_force_bitflip()
(in
ScoreFileSilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
DDPscore
)
successful_loop_closure()
(in
IRCollection
)
set_force_bitflip()
(in
ScoreJumpFileSilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
FaMPSolvEnergy
)
suck
(in
ScoreType
)
set_force_bitflip()
(in
SilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
MPPairEnergy
)
suck
(in
rosetta.core.scoring._core_scoring_
)
set_force_centroid_interaction()
(in
StepWiseRNA_ModelerOptions
)
setup_for_minimizing_for_residue_pair()
(in
CartesianBondedEnergy
)
suck
(in
rosetta.core.scoring
)
set_force_centroid_interaction()
(in
StepWiseMonteCarloOptions
)
setup_for_minimizing_for_residue_pair()
(in
CenHBEnergy
)
suck
(in
rosetta
)
set_force_cluster()
(in
CDRDihedralConstraintMover
)
setup_for_minimizing_for_residue_pair()
(in
CenPairEnergy
)
SuckerEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_force_combined_gaussian_approximation()
(in
GaussianChainFunc
)
setup_for_minimizing_for_residue_pair()
(in
CenRotPairEnergy
)
SuckerEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_force_ideal_chainbreak()
(in
AllowInsert
)
setup_for_minimizing_for_residue_pair()
(in
ContextDependentLRTwoBodyEnergy
)
SuckerEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_force_internal()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
ContextDependentTwoBodyEnergy
)
SuckerEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_force_nonideal()
(in
FastRelax
)
setup_for_minimizing_for_residue_pair()
(in
ContextIndependentLRTwoBodyEnergy
)
SuckerEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_force_north_paper_db()
(in
AddCDRProfileSetsOperation
)
setup_for_minimizing_for_residue_pair()
(in
ContextIndependentTwoBodyEnergy
)
SuckerEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_force_north_paper_db()
(in
AddCDRProfilesOperation
)
setup_for_minimizing_for_residue_pair()
(in
CustomAtomPairEnergy
)
suga
(in
atomitem
)
set_force_north_sugar_list()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
DNA_BaseEnergy
)
suga
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
set_force_north_sugar_list()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue_pair()
(in
Fa_MbsolvEnergy
)
suga
(in
rosetta.core.scoring.rna.chemical_shift
)
set_force_phosphate_instantiation()
(in
StepWiseRNA_ModelerOptions
)
setup_for_minimizing_for_residue_pair()
(in
GaussianOverlapEnergy
)
SUGAR
(in
rosetta.core.chemical.rna
)
set_force_phosphate_instantiation()
(in
MultiPhosphateSampler
)
setup_for_minimizing_for_residue_pair()
(in
GenBornEnergy
)
SUGAR
(in
BaseEdge
)
set_force_phosphate_instantiation()
(in
PhosphateMover
)
setup_for_minimizing_for_residue_pair()
(in
GoapEnergy
)
SUGAR
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
set_force_phosphate_instantiation()
(in
StepWiseMonteCarloOptions
)
setup_for_minimizing_for_residue_pair()
(in
HybridVDW_Energy
)
sugar
(in
rosetta.protocols.stepwise.modeler.rna
)
set_force_repack()
(in
PrepareForFullatom
)
setup_for_minimizing_for_residue_pair()
(in
LK_BallEnergy
)
sugar_bb
(in
ScoreType
)
set_force_south_sugar_list()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
LK_PolarNonPolarEnergy
)
sugar_bb
(in
rosetta.core.scoring._core_scoring_
)
set_force_south_sugar_list()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue_pair()
(in
LK_hack
)
sugar_bb
(in
rosetta.core.scoring
)
set_force_syn_chi_res_list()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
LongRangeTwoBodyEnergy
)
sugar_bb
(in
rosetta
)
set_force_syn_chi_res_list()
(in
StepWiseWorkingParameters
)
setup_for_minimizing_for_residue_pair()
(in
MMBondAngleEnergy
)
sugar_edge_paired()
(in
RNA_DMS_LowResolutionPotential
)
set_force_unique_moves()
(in
StepWiseMoveSelector
)
setup_for_minimizing_for_residue_pair()
(in
MMBondLengthEnergy
)
SUGAR_INSTANTIATOR
(in
rosetta.protocols.stepwise.screener
)
set_force_user_defined_jumps()
(in
StepWiseWorkingParametersSetup
)
setup_for_minimizing_for_residue_pair()
(in
MMLJEnergyInter
)
SUGAR_INSTANTIATOR
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_forced_silent_struct_type()
(in
SilentFileJobOutputter
)
setup_for_minimizing_for_residue_pair()
(in
MMLJEnergyIntra
)
SUGAR_INSTANTIATOR
(in
StepWiseScreenerType
)
set_forget_chains_and_interface()
(in
RestrictDesignToProteinDNAInterface
)
setup_for_minimizing_for_residue_pair()
(in
MMTorsionEnergy
)
SugarBackboneEnergy
(in
rosetta.core.scoring.methods.carbohydrates._core_scoring_methods_carbohydrates_
)
set_frac_by_recomb()
(in
GeneticAlgorithm
)
setup_for_minimizing_for_residue_pair()
(in
MembraneCenPairEnergy
)
SugarBackboneEnergyAP
(in
rosetta.core.scoring.methods.carbohydrates._core_scoring_methods_carbohydrates_
)
set_frac_by_recomb()
(in
GeneticAlgorithmBase
)
setup_for_minimizing_for_residue_pair()
(in
PairEnergy
)
SugarBackboneEnergyCAP
(in
rosetta.core.scoring.methods.carbohydrates._core_scoring_methods_carbohydrates_
)
set_fraction()
(in
ABEGO_SS_Pool
)
setup_for_minimizing_for_residue_pair()
(in
PeptideBondEnergy
)
SugarBackboneEnergyCreator
(in
rosetta.core.scoring.methods.carbohydrates._core_scoring_methods_carbohydrates_
)
set_fraction()
(in
QuotaConfig
)
setup_for_minimizing_for_residue_pair()
(in
PoissonBoltzmannEnergy
)
SugarBackboneEnergyCreatorAP
(in
rosetta.core.scoring.methods.carbohydrates._core_scoring_methods_carbohydrates_
)
set_fraction()
(in
QuotaPool
)
setup_for_minimizing_for_residue_pair()
(in
ProClosureEnergy
)
SugarBackboneEnergyCreatorCAP
(in
rosetta.core.scoring.methods.carbohydrates._core_scoring_methods_carbohydrates_
)
set_fraction()
(in
SecondaryStructurePool
)
setup_for_minimizing_for_residue_pair()
(in
Rama2BOffsetEnergy
)
SugarInstantiateMover
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_fractions()
(in
SecondaryStructure
)
setup_for_minimizing_for_residue_pair()
(in
RamachandranEnergy2B
)
SugarInstantiateMoverAP
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_frag3()
(in
AnchorMoversData
)
setup_for_minimizing_for_residue_pair()
(in
ShortRangeTwoBodyEnergy
)
SugarInstantiateMoverCAP
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_frag_1mer_insertion_weight()
(in
FoldTreeHybridize
)
setup_for_minimizing_for_residue_pair()
(in
SmoothCenPairEnergy
)
SugarInstantiator
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_frag_files()
(in
StepWiseProteinModelerOptions
)
setup_for_minimizing_for_residue_pair()
(in
SuckerEnergy
)
SugarInstantiatorAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_frag_size()
(in
RNA_FragmentMover
)
setup_for_minimizing_for_residue_pair()
(in
TwoBodyEnergy
)
SugarInstantiatorCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
set_frag_sizes()
(in
CartesianSampler
)
setup_for_minimizing_for_residue_pair()
(in
WaterAdductHBondEnergy
)
SugarModeling
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_frag_weight_aligned()
(in
FoldTreeHybridize
)
setup_for_minimizing_for_residue_pair()
(in
DFIRE_Energy
)
SugarModelingAP
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_fragment_probs()
(in
CartesianHybridize
)
setup_for_minimizing_for_residue_pair()
(in
OrbitalsScore
)
SugarModelingCAP
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_fragments()
(in
FragmentMover
)
setup_for_minimizing_for_residue_pair()
(in
RNA_FullAtomStackingEnergy
)
SugarVirtualizeMover
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_frags()
(in
AnchorMoversData
)
setup_for_minimizing_for_residue_pair()
(in
RNA_JR_SuiteEnergy
)
SugarVirtualizeMoverAP
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_fragset()
(in
FragQualCalculator
)
setup_for_minimizing_for_residue_pair()
(in
RNA_LJ_BaseEnergy
)
SugarVirtualizeMoverCAP
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
set_frames()
(in
FlexPacker
)
setup_for_minimizing_for_residue_pair()
(in
RNA_Mg_Energy
)
suggest_residue_number()
(in
JumpRotamerSidechainMover
)
set_frames()
(in
FlexbbRotamerSets
)
setup_for_minimizing_for_residue_pair()
(in
RNA_PairwiseLowResolutionEnergy
)
suggest_residue_number()
(in
PerturbChiSidechainMover
)
set_frequency()
(in
DbTrajectoryWriter
)
setup_for_minimizing_for_residue_pair()
(in
RNA_SuiteEnergy
)
suggest_residue_number()
(in
PerturbRotamerSidechainMover
)
set_from_scratch_frequency()
(in
StepWiseMoveSelector
)
setup_for_minimizing_for_residue_pair()
(in
RNA_TorsionEnergy
)
suggest_residue_number()
(in
SidechainMoverBase
)
set_from_scratch_frequency()
(in
StepWiseMonteCarloOptions
)
setup_for_minimizing_for_residue_pair()
(in
RNA_VDW_Energy
)
suggest_topology()
(in
PairingStatistics
)
set_ft_mover()
(in
ChangeAndResetFoldTreeMover
)
setup_for_minimizing_for_residue_pair()
(in
StackElecEnergy
)
suite_rmsd()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_full_length_loop_rmsd_clustering()
(in
StepWiseRNA_Clusterer
)
setup_for_minimizing_for_residue_pair()
(in
RNA_DataBackboneEnergy
)
suite_square_deviation()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
set_full_model_info()
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
setup_for_minimizing_for_residue_pair()
(in
symEnergy
)
suiteness_bonus
(in
ScoreType
)
set_full_model_parameters()
(in
SilentStruct
)
setup_for_minimizing_for_residue_pair()
(in
IgnoreSubsetConstraintSet
)
suiteness_bonus
(in
rosetta.core.scoring._core_scoring_
)
set_full_model_parameters()
(in
FullModelInfo
)
setup_for_minimizing_for_residue_pair()
(in
MaxSeqSepConstraintSet
)
suiteness_bonus
(in
rosetta.core.scoring
)
set_full_repack()
(in
ClassicRelax
)
setup_for_minimizing_for_residue_pair()
(in
InterchainPairEnergy
)
suiteness_bonus
(in
rosetta
)
set_full_sequence()
(in
StepWiseBasicWorkingParameters
)
setup_for_minimizing_sr2b_enmeths_for_minedge()
(in
ScoreFunction
)
suiteness_bonus()
(in
RNA_EnergyMethodOptions
)
set_full_to_sub()
(in
InputStreamWithResidueInfo
)
setup_for_packing()
(in
DunbrackEnergy
)
SULFATION
(in
rosetta
)
set_full_to_sub()
(in
StepWiseBasicWorkingParameters
)
setup_for_packing()
(in
CenRotDunEnergy
)
SULFATION
(in
rosetta.core.chemical
)
set_fullatom()
(in
CartesianSampler
)
setup_for_packing()
(in
HPatchEnergy
)
SULFATION
(in
rosetta.core.chemical._core_chemical_
)
set_fullatom()
(in
SymDockProtocol
)
setup_for_packing()
(in
SurfaceEnergy
)
SULFATION
(in
VariantType
)
set_fullatom_density_weight()
(in
MRMover
)
setup_for_packing()
(in
GenBornPotential
)
SULPH
(in
rosetta.protocols.match
)
set_fullatom_loop_building()
(in
CDRH3Modeler
)
setup_for_packing()
(in
ScoreFunction
)
SULPH
(in
ProbeRadius
)
set_fullatom_pose()
(in
FASelectSlidingWindowLoopClosure
)
setup_for_packing()
(in
CarbonHBondEnergy
)
SULPH
(in
rosetta.protocols.match._protocols_match_
)
set_fullatom_scorefunction()
(in
AnchorMoversData
)
setup_for_packing()
(in
ConstraintsEnergy
)
SUM
(in
rosetta.protocols.simple_filters
)
set_fullatom_scorefxn()
(in
Protocol
)
setup_for_packing()
(in
XtalMLEnergy
)
SUM
(in
Operation
)
set_fullatom_scorefxn()
(in
HybridizeProtocol
)
setup_for_packing()
(in
FullatomCustomPairDistanceEnergy
)
SUM
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_func()
(in
LoopScoreInfo
)
setup_for_packing()
(in
CentroidDisulfideEnergy
)
sum()
(in
EMapVector
)
set_func()
(in
GeneticAlgorithm
)
setup_for_packing()
(in
DisulfideMatchingEnergy
)
sum()
(in
AdaptiveScoreHistogram
)
set_func_for_weight()
(in
RampingMover
)
setup_for_packing()
(in
FullatomDisulfideEnergy
)
sum_ddG()
(in
ddG
)
set_Fv()
(in
Antibody
)
setup_for_packing()
(in
DNAChiEnergy
)
sum_deriv_contributions_for_atom_pair()
(in
LK_BallEnergy
)
set_gamma()
(in
Pose
)
setup_for_packing()
(in
DNATorsionEnergy
)
sum_deriv_contributions_for_atom_pair_one_way()
(in
LK_BallEnergy
)
set_Gamma()
(in
MDBase
)
setup_for_packing()
(in
FA_ElecEnergy
)
sum_energies()
(in
EtableEvaluator
)
set_gamma()
(in
EulerAngles
)
setup_for_packing()
(in
FA_ElecEnergyAroAll
)
sum_Hbond_terms()
(in
NumberHBondsCalculator
)
set_gap_size()
(in
StepWiseBasicWorkingParameters
)
setup_for_packing()
(in
FA_ElecEnergyAroAro
)
sum_of_neighbors_masses()
(in
TenANeighborNode
)
set_gasteiger_atom_type()
(in
ResidueType
)
setup_for_packing()
(in
FA_GrpElecEnergy
)
sum_radius()
(in
SixDOffsetTree
)
set_gasteiger_typeset()
(in
ResidueType
)
setup_for_packing()
(in
RNA_FA_ElecEnergy
)
sum_total_residue_energy()
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
set_gaussian()
(in
PerturbChiSidechainMover
)
setup_for_packing()
(in
ElecDensAllAtomCenEnergy
)
SumFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_gaussian_stdev()
(in
MC_OneTorsion
)
setup_for_packing()
(in
ElecDensCenEnergy
)
SumFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_gaussian_stdev()
(in
RNA_MC_MultiSuite
)
setup_for_packing()
(in
ElecDensEnergy
)
SumFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
set_gaussian_stdev()
(in
RNA_MC_Suite
)
setup_for_packing()
(in
FastDensEnergy
)
summarize_data()
(in
BinTransitionData
)
set_general_overlap_tolerance()
(in
BumpGrid
)
setup_for_packing()
(in
PattersonCorrEnergy
)
summarize_stored_data()
(in
BinTransitionCalculator
)
set_general_phi_sd()
(in
CDRDihedralConstraintMover
)
setup_for_packing()
(in
ElecDensAtomwiseEnergy
)
super_mute()
(in
Tracer
)
set_general_psi_sd()
(in
CDRDihedralConstraintMover
)
setup_for_packing()
(in
AnalyticEtableEnergy
)
superenv()
(in
EnvCore
)
set_genericRBMoveStepsize()
(in
RBSegmentRelax
)
setup_for_packing()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
superenv()
(in
Environment
)
set_geomcst_for_superposition_from_enz_io()
(in
AlignPoseToInvrotTreeMover
)
setup_for_packing()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
superimpose()
(in
RmsdFilter
)
set_ghost_loops()
(in
StepWiseProteinModelerOptions
)
setup_for_packing()
(in
TableLookupEtableEnergy
)
superimpose()
(in
DecoySetEvaluation
)
set_ghost_loops()
(in
StepWiseProteinBackboneSampler
)
setup_for_packing()
(in
FiberDiffractionEnergy
)
superimpose_atom_id_map()
(in
StepWisePoseAligner
)
set_global()
(in
WorkUnit_LoopHash
)
setup_for_packing()
(in
FiberDiffractionEnergyDens
)
superimpose_comb()
(in
MatchResidues
)
set_global_optimize()
(in
StepWiseProteinModelerOptions
)
setup_for_packing()
(in
ContextDependentGeometricSolEnergy
)
superimpose_on_all()
(in
RmsdFilter
)
set_global_sample_res_list()
(in
StepWiseWorkingParametersSetup
)
setup_for_packing()
(in
ContextIndependentGeometricSolEnergy
)
superimpose_over_all()
(in
StepWiseJobDistributor
)
set_global_sample_res_list()
(in
StepWiseWorkingParameters
)
setup_for_packing()
(in
ExactOccludedHbondSolEnergy
)
superimpose_over_all_instantiated()
(in
StepWisePoseAligner
)
set_GlyCorrection_values()
(in
OTFFlexbbEdge
)
setup_for_packing()
(in
OccludedHbondSolEnergy
)
superimpose_overhangs_heavy()
(in
rosetta.protocols.grafting._protocols_grafting_
)
set_GlyCorrection_values_for_edge()
(in
OTFFlexbbInteractionGraph
)
setup_for_packing()
(in
OccludedHbondSolEnergy_onebody
)
superimpose_pose()
(in
rosetta.core.scoring._core_scoring_
)
set_glycosidic_torsion()
(in
rosetta.core.pose.carbohydrates._core_pose_carbohydrates_
)
setup_for_packing()
(in
HackAroEnergy
)
superimpose_pose_legacy()
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_graft_design_options()
(in
AntibodyDesignMover
)
setup_for_packing()
(in
HBondEnergy
)
superimpose_pose_on_subset_bb()
(in
rosetta.protocols.fibril._protocols_fibril_
)
set_graft_h1()
(in
GraftCDRLoopsProtocol
)
setup_for_packing()
(in
DDPscore
)
superimpose_pose_on_subset_CA()
(in
rosetta.protocols.toolbox.pose_manipulation._protocols_toolbox_pose_manipulation_
)
set_graft_h2()
(in
GraftCDRLoopsProtocol
)
setup_for_packing()
(in
LoopCloseEnergy
)
superimpose_rmsd()
(in
StepWisePoseAligner
)
set_graft_h3()
(in
GraftCDRLoopsProtocol
)
setup_for_packing()
(in
FaMPEnvEnergy
)
superimpose_to_first_chunk()
(in
RNA_ChunkLibrary
)
set_graft_l1()
(in
GraftCDRLoopsProtocol
)
setup_for_packing()
(in
FaMPEnvSmoothEnergy
)
superimpose_with_stepwise_aligner()
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
set_graft_l2()
(in
GraftCDRLoopsProtocol
)
setup_for_packing()
(in
FaMPSolvEnergy
)
SuperimposeMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_graft_l3()
(in
GraftCDRLoopsProtocol
)
setup_for_packing()
(in
MPCbetaEnergy
)
SuperimposeMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_grid_param()
(in
PCS_Energy_parameters_manager
)
setup_for_packing()
(in
MPEnvEnergy
)
SuperimposeMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_grid_param()
(in
PcsEnergyParameter
)
setup_for_packing()
(in
MPLipoEnergy
)
SuperimposeMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_grid_param()
(in
PCS_Energy_parameters_manager_Ts1
)
setup_for_packing()
(in
MPNonHelixPenalty
)
SuperimposeMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_grid_param()
(in
PCS_Energy_parameters_manager_Ts2
)
setup_for_packing()
(in
MPPairEnergy
)
SuperimposeMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_grid_param()
(in
PCS_Energy_parameters_manager_Ts3
)
setup_for_packing()
(in
MPTMProjPenalty
)
superposition_transform()
(in
MotifGraftMover
)
set_grid_param()
(in
PCS_Energy_parameters_manager_Ts4
)
setup_for_packing()
(in
MPTerminiPenalty
)
superposition_transform()
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_grid_spacing()
(in
ElectronDensityOptions
)
setup_for_packing()
(in
BurialEnergy
)
superposition_transform()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
set_group_discriminator()
(in
GreenPacker
)
setup_for_packing()
(in
CartesianBondedEnergy
)
surf()
(in
PoseBalls
)
set_group_ids()
(in
UserDefinedGroupDiscriminator
)
setup_for_packing()
(in
CenHBEnergy
)
SURFACE
(in
rosetta
)
set_grouper()
(in
MatchConsolidator
)
setup_for_packing()
(in
CenPairEnergy
)
SURFACE
(in
rosetta.core.chemical
)
set_grow_attempts_()
(in
IndependentLoopMover
)
setup_for_packing()
(in
CenRotEnvEnergy
)
SURFACE
(in
ResidueProperty
)
set_guarded_loops_not_in_charge()
(in
LoopMover
)
setup_for_packing()
(in
CenRotPairEnergy
)
SURFACE
(in
rosetta.core.chemical._core_chemical_
)
set_h3_filter()
(in
RefineOneCDRLoop
)
setup_for_packing()
(in
ChainbreakEnergy
)
surface
(in
ScoreType
)
set_h3_stem_graft()
(in
GraftCDRLoopsProtocol
)
setup_for_packing()
(in
ChemicalShiftAnisotropyEnergy
)
surface
(in
rosetta.core.scoring._core_scoring_
)
set_H3Filter()
(in
AntibodyModelerProtocol
)
setup_for_packing()
(in
ContactOrderEnergy
)
surface
(in
rosetta.core.scoring
)
set_H3Filter_Tolerance()
(in
AntibodyModelerProtocol
)
setup_for_packing()
(in
ContextDependentLRTwoBodyEnergy
)
SURFACE
(in
PtType
)
set_half_width()
(in
LinearPenaltyFunction
)
setup_for_packing()
(in
ContextDependentOneBodyEnergy
)
SURFACE
(in
ElectrostaticpotentialGrid
)
set_handedness_score_flag()
(in
SecondaryStructureWeights
)
setup_for_packing()
(in
ContextDependentTwoBodyEnergy
)
surface
(in
rosetta
)
set_hardsphere_bump_check()
(in
KinematicMover
)
setup_for_packing()
(in
ContextIndependentLRTwoBodyEnergy
)
surface_docking
(in
rosetta.protocols
)
set_harmonic_constants()
(in
NormalMode
)
setup_for_packing()
(in
ContextIndependentOneBodyEnergy
)
surface_exposed_nb_cutoff()
(in
RestrictNonSurfaceToRepackingOperation
)
set_harmonic_constants()
(in
NormalModeRelaxMover
)
setup_for_packing()
(in
ContextIndependentTwoBodyEnergy
)
SURFACE_PARAMS
(in
Enum
)
set_has_silent_in()
(in
Batch
)
setup_for_packing()
(in
CustomAtomPairEnergy
)
SURFACE_PARAMS
(in
CacheableDataType
)
set_hash_euclidean_bin_width()
(in
Matcher
)
setup_for_packing()
(in
D2H_SA_Energy
)
surface_vectors()
(in
SurfaceSearchPattern
)
set_hash_euclidean_bin_width()
(in
MatcherTask
)
setup_for_packing()
(in
DNA_BaseEnergy
)
SurfaceCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_hash_euclidean_bin_widths()
(in
Matcher
)
setup_for_packing()
(in
DipolarCouplingEnergy
)
SurfaceCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_hash_euler_bin_width()
(in
Matcher
)
setup_for_packing()
(in
DirectReadoutEnergy
)
SurfaceCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
set_hash_euler_bin_width()
(in
MatcherTask
)
setup_for_packing()
(in
DistanceChainbreakEnergy
)
SurfaceDockingProtocol
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_hash_euler_bin_widths()
(in
Matcher
)
setup_for_packing()
(in
EnergyMethod
)
SurfaceDockingProtocolAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_hbond_options()
(in
HBondSet
)
setup_for_packing()
(in
EnvEnergy
)
SurfaceDockingProtocolCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_heat_after_cycles()
(in
MonteCarlo
)
setup_for_packing()
(in
EnvSmoothEnergy
)
SurfaceEnergies
(in
rosetta.core.scoring.solid_surface._core_scoring_solid_surface_
)
set_helicalMoveStepsize()
(in
RBSegmentRelax
)
setup_for_packing()
(in
Fa_MbenvEnergy
)
SurfaceEnergiesAP
(in
rosetta.core.scoring.solid_surface._core_scoring_solid_surface_
)
set_helix_index()
(in
PerturbBundleOptions
)
setup_for_packing()
(in
Fa_MbsolvEnergy
)
SurfaceEnergiesCAP
(in
rosetta.core.scoring.solid_surface._core_scoring_solid_surface_
)
set_helix_length()
(in
MakeBundleHelix
)
setup_for_packing()
(in
FreeDOF_Energy
)
SurfaceEnergy
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_helix_params_from_tag()
(in
MakeBundle
)
setup_for_packing()
(in
GaussianOverlapEnergy
)
SurfaceEnergyAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_helix_to_copy()
(in
PerturbBundleOptions
)
setup_for_packing()
(in
GenBornEnergy
)
SurfaceEnergyCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_hh_angle()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
GoapEnergy
)
SurfaceEnergyCreator
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_hh_angle_sigma2()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
HybridVDW_Energy
)
SurfaceEnergyCreatorAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_hh_angle_wts()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
IntermolEnergy
)
SurfaceEnergyCreatorCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_highres_score_func()
(in
H3RefineCCD
)
setup_for_packing()
(in
LK_BallEnergy
)
SurfaceOrientMover
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_highres_score_func()
(in
CDRH3Modeler
)
setup_for_packing()
(in
LK_PolarNonPolarEnergy
)
SurfaceOrientMoverAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_highres_scorefxn()
(in
DockingProtocol
)
setup_for_packing()
(in
LK_hack
)
SurfaceOrientMoverCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_highres_scorefxn()
(in
TemperedDocking
)
setup_for_packing()
(in
LinearChainbreakEnergy
)
SurfaceParameters
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_highres_scorefxn()
(in
SymDockProtocol
)
setup_for_packing()
(in
LongRangeTwoBodyEnergy
)
SurfaceParametersAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_hightemp()
(in
SimAnnealerBase
)
setup_for_packing()
(in
MMBondAngleEnergy
)
SurfaceParametersCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_history_size()
(in
MultistateFitnessFunction
)
setup_for_packing()
(in
MMBondLengthEnergy
)
SurfacePotential
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_hit_cacher()
(in
SameChiBinComboGrouper
)
setup_for_packing()
(in
MMLJEnergyInter
)
SurfacePotentialAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_hit_cacher()
(in
SameSequenceGrouper
)
setup_for_packing()
(in
MMLJEnergyIntra
)
SurfacePotentialCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_hpairset()
(in
NatbiasHelixPairPotential
)
setup_for_packing()
(in
MMTorsionEnergy
)
SurfaceSearchPattern
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_hs_angle()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
MembraneCbetaEnergy
)
SurfaceSearchPatternAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_hs_angle_sigma2()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
MembraneCenPairEnergy
)
SurfaceSearchPatternCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
set_hs_angle_wts()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
MembraneEnvEnergy
)
SurfaceVectorFallbackConfiguration
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_hs_atr_dist()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
MembraneEnvPenalties
)
SurfaceVectorFallbackConfigurationAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_hs_atr_dist_sigma2()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
MembraneEnvSmoothEnergy
)
SurfaceVectorFallbackConfigurationCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_hs_atr_dist_wts()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
MembraneLipo
)
SurfaceVectorFallbackConfigurationCreator
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_hsheet_repl_dist()
(in
NatbiasHelicesSheetPotential
)
setup_for_packing()
(in
MissingEnergy
)
SurfaceVectorFallbackConfigurationCreatorAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_icoor()
(in
ResidueType
)
setup_for_packing()
(in
NMerPSSMEnergy
)
SurfaceVectorFallbackConfigurationCreatorCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
DOF_Node
)
setup_for_packing()
(in
NMerRefEnergy
)
SurfaceVectorLoader
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
RemodelConstraintGenerator
)
setup_for_packing()
(in
NMerSVMEnergy
)
SurfaceVectorLoaderAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
FragmentScoringMethod
)
setup_for_packing()
(in
OmegaTetherEnergy
)
SurfaceVectorLoaderCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
Batch
)
setup_for_packing()
(in
OneBodyEnergy
)
SurfaceVectorLoaderCreator
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
OptEVariableExpression
)
setup_for_packing()
(in
OtherPoseEnergy
)
SurfaceVectorLoaderCreatorAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
JumpStepWiseSampler
)
setup_for_packing()
(in
P_AA_Energy
)
SurfaceVectorLoaderCreatorCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
NoOpStepWiseSampler
)
setup_for_packing()
(in
P_AA_pp_Energy
)
SurfaceVectorOptions
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
StepWiseSamplerOneTorsion
)
setup_for_packing()
(in
PackStatEnergy
)
SurfaceVectorOptionsAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
StepWiseSamplerOneValue
)
setup_for_packing()
(in
PairEnergy
)
SurfaceVectorOptionsCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
StepWiseSamplerOneValueComb
)
setup_for_packing()
(in
PeptideBondEnergy
)
SurfaceVectorOptionsCreator
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
StepWiseSamplerSized
)
setup_for_packing()
(in
PoissonBoltzmannEnergy
)
SurfaceVectorOptionsCreatorAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
StepWiseSamplerSizedAny
)
setup_for_packing()
(in
ProClosureEnergy
)
SurfaceVectorOptionsCreatorCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
set_id()
(in
StepWiseSamplerSizedComb
)
setup_for_packing()
(in
ProQ_Energy
)
SurfEnergy
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
CopyDofStepWiseSampler
)
setup_for_packing()
(in
RG_Energy_Fast
)
SurfEnergyAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
ResidueAlternativeStepWiseSampler
)
setup_for_packing()
(in
RG_LocalEnergy
)
SurfEnergyCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
ResidueAlternativeStepWiseSamplerComb
)
setup_for_packing()
(in
RMS_Energy
)
SurfEnergyCreator
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
ResidueListStepWiseSampler
)
setup_for_packing()
(in
Rama2BOffsetEnergy
)
SurfEnergyCreatorAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
InputStreamStepWiseSampler
)
setup_for_packing()
(in
RamachandranEnergy
)
SurfEnergyCreatorCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
ProteinBetaAntiParallelStepWiseSampler
)
setup_for_packing()
(in
RamachandranEnergy2B
)
SurfVol
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
ProteinFragmentStepWiseSampler
)
setup_for_packing()
(in
ReferenceEnergy
)
SurfVolAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
ProteinMainChainStepWiseSampler
)
setup_for_packing()
(in
ReferenceEnergyNoncanonical
)
SurfVolCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
RigidBodyStepWiseSampler
)
setup_for_packing()
(in
ResidualDipolarCouplingEnergy
)
SurfVolDeriv
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
RNA_ChiStepWiseSampler
)
setup_for_packing()
(in
ResidualDipolarCouplingEnergy_Rohl
)
SurfVolDerivAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
RNA_KinematicCloser
)
setup_for_packing()
(in
SA_Energy
)
SurfVolDerivCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
RNA_NucleosideStepWiseSampler
)
setup_for_packing()
(in
SecondaryStructureEnergy
)
SurfVolEnergy
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
RNA_SugarStepWiseSampler
)
setup_for_packing()
(in
SequenceDependentRefEnergy
)
SurfVolEnergyAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_id()
(in
RNA_SuiteStepWiseSampler
)
setup_for_packing()
(in
ShortRangeTwoBodyEnergy
)
SurfVolEnergyCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_ideal_xyz()
(in
ResidueType
)
setup_for_packing()
(in
SmoothCenPairEnergy
)
SurfVolEnergyCreator
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_idealize_conformers()
(in
LigandConformerBuilder
)
setup_for_packing()
(in
SmoothEnvEnergy
)
SurfVolEnergyCreatorAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_idealize_coord()
(in
RNA_KIC_Sampler
)
setup_for_packing()
(in
SuckerEnergy
)
SurfVolEnergyCreatorCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
set_idealize_coord()
(in
RNA_MC_Sugar
)
setup_for_packing()
(in
SymmetricLigandEnergy
)
SurrogateVariableExpression
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_idealize_coord()
(in
RNA_MC_Suite
)
setup_for_packing()
(in
TwoBodyEnergy
)
SurrogateVariableExpressionAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_idealize_coord()
(in
RNA_NucleosideStepWiseSampler
)
setup_for_packing()
(in
UnfoldedStateEnergy
)
SurrogateVariableExpressionCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
set_idealize_coord()
(in
RNA_SugarStepWiseSampler
)
setup_for_packing()
(in
WaterAdductHBondEnergy
)
svd
(in
rosetta.basic
)
set_idealize_coord()
(in
RNA_SuiteStepWiseSampler
)
setup_for_packing()
(in
WaterAdductIntraEnergy
)
SVD_Solver
(in
rosetta.basic.svd._basic_svd_
)
set_idealize_h3_stems()
(in
ModelCDRH3
)
setup_for_packing()
(in
WholeStructureEnergy
)
SVD_SolverAP
(in
rosetta.basic.svd._basic_svd_
)
set_idealize_h3_stems_before_modeling()
(in
AntibodyModelerProtocol
)
setup_for_packing()
(in
YHHPlanarityEnergy
)
SVD_SolverCAP
(in
rosetta.basic.svd._basic_svd_
)
set_idealize_loop_first()
(in
KinematicMover
)
setup_for_packing()
(in
pHEnergy
)
Svm_node_rosetta
(in
rosetta.utility.libsvm._utility_libsvm_
)
set_identity()
(in
HomogeneousTransform_T_double_T
)
setup_for_packing()
(in
SugarBackboneEnergy
)
Svm_node_rosettaAP
(in
rosetta.utility.libsvm._utility_libsvm_
)
set_identity_rotation()
(in
HomogeneousTransform_T_double_T
)
setup_for_packing()
(in
DFIRE_Energy
)
Svm_node_rosettaCAP
(in
rosetta.utility.libsvm._utility_libsvm_
)
set_identity_transform()
(in
HomogeneousTransform_T_double_T
)
setup_for_packing()
(in
NVscore
)
Svm_rosetta
(in
rosetta.utility.libsvm._utility_libsvm_
)
set_IGEdgeReweights()
(in
PackerTask
)
setup_for_packing()
(in
OrbitalsScore
)
Svm_rosettaAP
(in
rosetta.utility.libsvm._utility_libsvm_
)
set_IGEdgeReweights()
(in
PackerTask_
)
setup_for_packing()
(in
HolesEnergy
)
Svm_rosettaCAP
(in
rosetta.utility.libsvm._utility_libsvm_
)
set_ignore_cmdline_for_build_points()
(in
MatcherTask
)
setup_for_packing()
(in
HolesEnergyRes
)
swa_moves()
(in
StepWiseMoveSelector
)
set_ignore_default_docking_task()
(in
DockingProtocol
)
setup_for_packing()
(in
SurfEnergy
)
SWAligner
(in
rosetta.core.sequence._core_sequence_
)
set_ignore_default_task()
(in
DockingHighRes
)
setup_for_packing()
(in
SurfVolEnergy
)
SWAlignerAP
(in
rosetta.core.sequence._core_sequence_
)
set_ignore_FARFAR_no_auto_bulge_parent_tag()
(in
StepWiseRNA_Clusterer
)
setup_for_packing()
(in
RG_Energy_RNA
)
SWAlignerCAP
(in
rosetta.core.sequence._core_sequence_
)
set_ignore_FARFAR_no_auto_bulge_tag()
(in
StepWiseRNA_Clusterer
)
setup_for_packing()
(in
RNA_BulgeEnergy
)
swap()
(in
AtomID_Map_T_bool_T
)
set_ignore_pikaa_natro()
(in
LayerDesignOperation
)
setup_for_packing()
(in
RNA_FullAtomStackingEnergy
)
swap()
(in
AtomID_Map_T_core_id_AtomID_T
)
set_ignore_pose_datacache()
(in
CDRDihedralConstraintMover
)
setup_for_packing()
(in
RNA_FullAtomVDW_BasePhosphate
)
swap()
(in
AtomID_Map_T_double_T
)
set_ignore_pose_profile_length_mismatch()
(in
SeqprofConsensusOperation
)
setup_for_packing()
(in
RNA_JR_SuiteEnergy
)
swap()
(in
AtomID_Map_T_numeric_xyzVector_T_double_T__T
)
set_ignore_unmatched_virtual_res()
(in
StepWiseRNA_Clusterer
)
setup_for_packing()
(in
RNA_LJ_BaseEnergy
)
swap()
(in
NamedAtomID_Map_T_core_id_NamedAtomID_T
)
set_ignore_unrecognized_res()
(in
FileDataOptions
)
setup_for_packing()
(in
RNA_Mg_Energy
)
swap()
(in
Quaternion_Real
)
set_ignore_unrecognized_res()
(in
RotamerRecovery
)
setup_for_packing()
(in
RNA_PairwiseLowResolutionEnergy
)
swap()
(in
Quaternion_double
)
set_ignore_waters()
(in
FileDataOptions
)
setup_for_packing()
(in
RNA_SugarCloseEnergy
)
swap()
(in
Quaternion_float
)
set_ignore_zero_occupancy()
(in
FileDataOptions
)
setup_for_packing()
(in
RNA_SuiteEnergy
)
swap4_aligned()
(in
rosetta.utility._utility_
)
set_implicit_hydrogen_included_radii_set()
(in
SasaCalc
)
setup_for_packing()
(in
RNA_TorsionEnergy
)
swap_chain()
(in
AddChainMover
)
set_include_backbone_atoms()
(in
RRComparerAutomorphicRMSD
)
setup_for_packing()
(in
RNA_VDW_Energy
)
swap_chain_number()
(in
AddChainMover
)
set_include_background_energies()
(in
DaemonSet
)
setup_for_packing()
(in
StackElecEnergy
)
swap_edge_energies()
(in
DensePDEdge
)
set_include_background_energies()
(in
PackDaemon
)
setup_for_packing()
(in
RNA_ChemicalShiftEnergy
)
swap_edge_energies()
(in
DensePDInteractionGraph
)
set_include_carbon_sulfer_only_in_hydrophobic_calc()
(in
SasaCalc
)
setup_for_packing()
(in
RNA_ChemicalMappingEnergy
)
swap_edge_energies()
(in
FASTEREdge
)
set_include_default_linear_chainbreak()
(in
RNA_Minimizer
)
setup_for_packing()
(in
RNA_DataBackboneEnergy
)
swap_edge_energies()
(in
FASTERInteractionGraph
)
set_include_hydrogens_explicitly()
(in
SasaCalc
)
setup_for_packing()
(in
FastSAXSEnergy
)
swap_file()
(in
WorkUnitQueue_Swapped
)
set_include_native_restype()
(in
ResidueProbDesignOperation
)
setup_for_packing()
(in
SAXSEnergy
)
swap_in()
(in
SegmentSwap
)
set_include_native_type()
(in
AddCDRProfileSetsOperation
)
setup_for_packing()
(in
symEnergy
)
swap_in_movemap()
(in
SegmentSwap
)
set_include_native_type()
(in
AddCDRProfilesOperation
)
setup_for_packing()
(in
AACompositionEnergy
)
swap_replicas()
(in
BiasEnergy
)
set_include_neighbors()
(in
RestrictToLoopsAndNeighbors
)
setup_for_packing()
(in
NatbiasSecondaryStructureEnergy
)
swap_transform()
(in
rosetta.core.pose._core_pose_
)
set_include_neighbors()
(in
RestrictToMoveMapChiOperation
)
setup_for_packing()
(in
EnsembleEnergy
)
SwapSegment
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_include_probe_radius_in_atom_radii()
(in
SasaCalc
)
setup_for_packing()
(in
InterchainEnvEnergy
)
SwapSegmentAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_include_probe_radius_in_calc()
(in
SasaMethod
)
setup_for_packing()
(in
InterchainPairEnergy
)
SwapSegmentCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_include_terminal_loops()
(in
SecondaryStructureSelector
)
setup_for_packing()
(in
ResidualDipolarCouplingEnergyRigidSegments
)
SwapSegmentCreator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_increase_cycles()
(in
CartesianHybridize
)
setup_for_packing()
(in
SpecialRotamerEnergy
)
SwapSegmentCreatorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_increase_cycles()
(in
FoldTreeHybridize
)
setup_for_packing()
(in
PCS_Energy
)
SwapSegmentCreatorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
set_indent()
(in
Emitter
)
setup_for_packing()
(in
PcsEnergy
)
sweep_incomplete()
(in
KinematicMover
)
set_index()
(in
ResidueIndexSelector
)
setup_for_packing()
(in
PCS_Energy_Ts1
)
switch_conformer()
(in
ConformerSwitchMover
)
set_index()
(in
SimulateMPIMessage
)
setup_for_packing()
(in
PCS_Energy_Ts2
)
switch_focus_among_poses_randomly()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_index()
(in
Svm_node_rosetta
)
setup_for_packing()
(in
PCS_Energy_Ts3
)
switch_focus_frequency()
(in
StepWiseMoveSelector
)
set_inherit_scorefxn_temperature()
(in
SidechainMCMover
)
setup_for_packing()
(in
PCS_Energy_Ts4
)
switch_focus_frequency()
(in
StepWiseMonteCarloOptions
)
set_init_from_pose()
(in
RNA_MC_MultiSuite
)
setup_for_packing()
(in
PDDFEnergy
)
switch_focus_to_other_pose()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
set_init_from_pose()
(in
RNA_MC_Suite
)
setup_for_residue_pair_energies()
(in
HBondSet
)
switch_movemap()
(in
Loop
)
set_init_states()
(in
RNA_MC_Suite
)
setup_for_run()
(in
SymShakeStructureMover
)
switch_movemap()
(in
Loops
)
set_initial_decoy_stddev()
(in
PNatStructureOptEData
)
setup_for_scoring()
(in
DunbrackConstraint
)
switch_residue_type_set()
(in
AlignPoseToInvrotTreeMover
)
set_initial_guesses()
(in
FitSimpleHelix
)
setup_for_scoring()
(in
DunbrackEnergy
)
SWITCH_TO_FULLATOM
(in
rosetta
)
set_initial_pose()
(in
VIP_Mover
)
setup_for_scoring()
(in
RotamerConstraint
)
SWITCH_TO_FULLATOM
(in
rosetta.protocols.abinitio
)
set_initialized()
(in
RNA_SecStructInfo
)
setup_for_scoring()
(in
CenRotDunEnergy
)
SWITCH_TO_FULLATOM
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
set_inner_cycles()
(in
AntibodyDesignMover
)
setup_for_scoring()
(in
HPatchEnergy
)
SWITCH_TO_FULLATOM
(in
StageID
)
set_inner_cycles()
(in
DockingLowRes
)
setup_for_scoring()
(in
SurfaceEnergy
)
switch_to_fullatom()
(in
FoldandDockClaimer
)
set_inner_cycles()
(in
DockingProtocol
)
setup_for_scoring()
(in
MinimizationEdge
)
switch_to_fullatom()
(in
MembraneTopologyClaimer
)
set_inner_loop_cycles()
(in
CentroidRelaxMover
)
setup_for_scoring()
(in
MinimizationNode
)
switch_to_fullatom()
(in
TopologyClaimer
)
set_inp_chi()
(in
RotData
)
setup_for_scoring()
(in
ProQPotential
)
switch_to_residue_type_set()
(in
rosetta.core.util._core_util_
)
set_input_code()
(in
ANN
)
setup_for_scoring()
(in
ScoreFunction
)
SwitchChainOrderMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
RotamerDumpMover
)
setup_for_scoring()
(in
SecondaryStructurePotential
)
SwitchChainOrderMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
AbrelaxMover
)
setup_for_scoring()
(in
CarbonHBondEnergy
)
SwitchChainOrderMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
ClassicAbinitio
)
setup_for_scoring()
(in
AmbiguousConstraint
)
SwitchChainOrderMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
ConstraintFragmentSampler
)
setup_for_scoring()
(in
AmbiguousNMRConstraint
)
SwitchChainOrderMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
DomainAssembly
)
setup_for_scoring()
(in
AmbiguousNMRDistanceConstraint
)
SwitchChainOrderMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
DoubleLayerKinematicAbinitio
)
setup_for_scoring()
(in
AngleConstraint
)
SwitchResidueTypeSetMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
FoldConstraints
)
setup_for_scoring()
(in
AtomPairConstraint
)
SwitchResidueTypeSetMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
FragmentSampler
)
setup_for_scoring()
(in
BackboneStubConstraint
)
SwitchResidueTypeSetMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
JumpingFoldConstraintsWrapper
)
setup_for_scoring()
(in
BackboneStubLinearConstraint
)
SwitchResidueTypeSetMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
KinematicAbinitio
)
setup_for_scoring()
(in
BigBinConstraint
)
SwitchResidueTypeSetMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
KinematicTaskControl
)
setup_for_scoring()
(in
ConstantConstraint
)
SwitchResidueTypeSetMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
set_input_pose()
(in
LoopJumpFoldCst
)
setup_for_scoring()
(in
Constraint
)
sym_bonus_lr
(in
LongRangeEnergyType
)
set_input_pose()
(in
MembraneAbinitio
)
setup_for_scoring()
(in
ConstraintSet
)
sym_bonus_lr
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
Protocol
)
setup_for_scoring()
(in
Constraints
)
sym_bonus_lr
(in
rosetta.core.scoring.methods
)
set_input_pose()
(in
ResolutionSwitcher
)
setup_for_scoring()
(in
ConstraintsEnergy
)
sym_dof_jump_num()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
set_input_pose()
(in
AbscriptLoopCloserCM
)
setup_for_scoring()
(in
CoordinateConstraint
)
sym_dof_name()
(in
GetRBDOFValues
)
set_input_pose()
(in
AbscriptMover
)
setup_for_scoring()
(in
DihedralConstraint
)
sym_dof_name()
(in
ShapeComplementarityFilter
)
set_input_pose()
(in
AbscriptStageMover
)
setup_for_scoring()
(in
DihedralPairConstraint
)
sym_dof_names()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
set_input_pose()
(in
ConstraintPreparer
)
setup_for_scoring()
(in
DistancePairConstraint
)
sym_dof_names()
(in
ClashCheckFilter
)
set_input_pose()
(in
FragmentCM
)
setup_for_scoring()
(in
FabConstraint
)
sym_dof_names()
(in
InterfacePackingFilter
)
set_input_pose()
(in
FragmentJumpCM
)
setup_for_scoring()
(in
KofNConstraint
)
sym_dof_names()
(in
OligomericAverageDegreeFilter
)
set_input_pose()
(in
RigidChunkCM
)
setup_for_scoring()
(in
LocalCoordinateConstraint
)
sym_dof_names()
(in
SymUnsatHbondFilter
)
set_input_pose()
(in
StagePreparer
)
setup_for_scoring()
(in
MultiConstraint
)
sym_dof_names()
(in
InterfaceSasaFilter
)
set_input_pose()
(in
StructPerturberCM
)
setup_for_scoring()
(in
NamedAngleConstraint
)
sym_dof_names()
(in
RotamerBoltzmannWeight
)
set_input_pose()
(in
InterfaceAnalyzerMover
)
setup_for_scoring()
(in
NamedAtomPairConstraint
)
sym_dof_names()
(in
TaskAwareScoreTypeFilter
)
set_input_pose()
(in
LoopAnalyzerMover
)
setup_for_scoring()
(in
NonResidueTypeConstraint
)
sym_e
(in
rosetta.core.scoring
)
set_input_pose()
(in
PackStatMover
)
setup_for_scoring()
(in
ResidueTypeConstraint
)
sym_lig
(in
ScoreType
)
set_input_pose()
(in
AnchoredDesignMover
)
setup_for_scoring()
(in
ResidueTypeLinkingConstraint
)
sym_lig
(in
rosetta.core.scoring._core_scoring_
)
set_input_pose()
(in
AnchoredPerturbMover
)
setup_for_scoring()
(in
SequenceProfileConstraint
)
sym_lig
(in
rosetta.core.scoring
)
set_input_pose()
(in
AnchoredRefineMover
)
setup_for_scoring()
(in
SiteConstraint
)
sym_lig
(in
rosetta
)
set_input_pose()
(in
AntibodyModelerProtocol
)
setup_for_scoring()
(in
SiteConstraintResidues
)
SymAtomTreeMinimizer
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
CDRsMinPackMin
)
setup_for_scoring()
(in
XtalMLEnergy
)
SymAtomTreeMinimizerAP
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
CloseOneCDRLoop
)
setup_for_scoring()
(in
FullatomCustomPairDistanceEnergy
)
SymAtomTreeMinimizerCAP
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
GraftCDRLoopsProtocol
)
setup_for_scoring()
(in
CentroidDisulfideEnergy
)
SymAtomTreeMultifunc
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
GraftOneCDRLoop
)
setup_for_scoring()
(in
DisulfideMatchingEnergy
)
SymAtomTreeMultifuncAP
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
GraftedStemOptimizer
)
setup_for_scoring()
(in
FullatomDisulfideEnergy
)
SymAtomTreeMultifuncCAP
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
H3CterInsert
)
setup_for_scoring()
(in
DNAChiEnergy
)
symbol2index()
(in
ABEGOManager
)
set_input_pose()
(in
H3PerturbCCD
)
setup_for_scoring()
(in
DNATorsionEnergy
)
symbolString2base5index()
(in
ABEGOManager
)
set_input_pose()
(in
H3RefineCCD
)
setup_for_scoring()
(in
FA_ElecEnergy
)
SymDock_main()
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
LHRepulsiveRamp
)
setup_for_scoring()
(in
FA_ElecEnergyAroAll
)
SymDockBaseProtocol
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
ModelCDRH3
)
setup_for_scoring()
(in
FA_ElecEnergyAroAro
)
SymDockBaseProtocolAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
RefineBetaBarrel
)
setup_for_scoring()
(in
FA_GrpElecEnergy
)
SymDockBaseProtocolCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
RefineOneCDRLoop
)
setup_for_scoring()
(in
RNA_FA_ElecEnergy
)
SymDockingHiRes
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
RefineOneCDRLoopCentroid
)
setup_for_scoring()
(in
ElecDensAllAtomCenEnergy
)
SymDockingHiResAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
CDRDihedralConstraintMover
)
setup_for_scoring()
(in
ElecDensCenEnergy
)
SymDockingHiResCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
ParatopeEpitopeSiteConstraintMover
)
setup_for_scoring()
(in
ElecDensEnergy
)
SymDockingInitialPerturbation
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
ParatopeSiteConstraintMover
)
setup_for_scoring()
(in
FastDensEnergy
)
SymDockingInitialPerturbationAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
AntibodyDesignMover
)
setup_for_scoring()
(in
PattersonCorrEnergy
)
SymDockingInitialPerturbationCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
AntibodyDesignProtocol
)
setup_for_scoring()
(in
ElecDensAtomwiseEnergy
)
SymDockingLowRes
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
MutateFrameworkForCluster
)
setup_for_scoring()
(in
AnalyticEtableEnergy
)
SymDockingLowResAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
AntibodyModeler
)
setup_for_scoring()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
SymDockingLowResCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
CDRH3Modeler
)
setup_for_scoring()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
SymDockingSlideIntoContact
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
CloseOneMover
)
setup_for_scoring()
(in
TableLookupEtableEnergy
)
SymDockingSlideIntoContactAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
GraftMover
)
setup_for_scoring()
(in
FiberDiffractionEnergy
)
SymDockingSlideIntoContactCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
GraftOneMover
)
setup_for_scoring()
(in
FiberDiffractionEnergyDens
)
SymDockProtocol
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
LoopRlxMover
)
setup_for_scoring()
(in
ContextDependentGeometricSolEnergy
)
SymDockProtocolAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
BackrubMover
)
setup_for_scoring()
(in
ContextIndependentGeometricSolEnergy
)
SymDockProtocolCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
BackrubProtocol
)
setup_for_scoring()
(in
ExactOccludedHbondSolEnergy
)
SymDockProtocolCreator
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
BackrubSidechainMover
)
setup_for_scoring()
(in
OccludedHbondSolEnergy
)
SymDockProtocolCreatorAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
CanonicalSamplingMover
)
setup_for_scoring()
(in
OccludedHbondSolEnergy_onebody
)
SymDockProtocolCreatorCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
FixedTemperatureController
)
setup_for_scoring()
(in
HackAroEnergy
)
SymDof
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
MetricRecorder
)
setup_for_scoring()
(in
HBondEnergy
)
SymDofAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
MetropolisHastingsMover
)
setup_for_scoring()
(in
DDPscore
)
SymDofCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
ParallelTempering
)
setup_for_scoring()
(in
LoopCloseEnergy
)
SymDofMover
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
ProgressBarObserver
)
setup_for_scoring()
(in
FaMPEnvEnergy
)
SymDofMoverAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
SidechainMetropolisHastingsMover
)
setup_for_scoring()
(in
FaMPEnvSmoothEnergy
)
SymDofMoverCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
SimulatedTempering
)
setup_for_scoring()
(in
FaMPSolvEnergy
)
SymDofMoverCreator
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
TemperatureController
)
setup_for_scoring()
(in
MPCbetaEnergy
)
SymDofMoverCreatorAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
TemperingBase
)
setup_for_scoring()
(in
MPEnvEnergy
)
SymDofMoverCreatorCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
ThermodynamicMover
)
setup_for_scoring()
(in
MPLipoEnergy
)
SymDofMoverSampler
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
ThermodynamicObserver
)
setup_for_scoring()
(in
MPNonHelixPenalty
)
SymDofMoverSamplerAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
TrialCounterObserver
)
setup_for_scoring()
(in
MPPairEnergy
)
SymDofMoverSamplerCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
AssignToClustersMover
)
setup_for_scoring()
(in
MPTMProjPenalty
)
symE_bonus
(in
ScoreType
)
set_input_pose()
(in
ClusterBase
)
setup_for_scoring()
(in
MPTerminiPenalty
)
symE_bonus
(in
rosetta.core.scoring._core_scoring_
)
set_input_pose()
(in
ClusterPhilStyle
)
setup_for_scoring()
(in
BurialEnergy
)
symE_bonus
(in
rosetta.core.scoring
)
set_input_pose()
(in
ClusterPhilStyle_Loop
)
setup_for_scoring()
(in
CartesianBondedEnergy
)
symE_bonus
(in
rosetta
)
set_input_pose()
(in
ClusterPhilStyle_PoseReporter
)
setup_for_scoring()
(in
CenHBEnergy
)
symECreator
(in
rosetta.core.scoring.sym_e._core_scoring_sym_e_
)
set_input_pose()
(in
EnsembleConstraints
)
setup_for_scoring()
(in
CenPairEnergy
)
symECreatorAP
(in
rosetta.core.scoring.sym_e._core_scoring_sym_e_
)
set_input_pose()
(in
EnsembleConstraints_Simple
)
setup_for_scoring()
(in
CenRotEnvEnergy
)
symECreatorCAP
(in
rosetta.core.scoring.sym_e._core_scoring_sym_e_
)
set_input_pose()
(in
GatherPosesMover
)
setup_for_scoring()
(in
CenRotPairEnergy
)
symEnergy
(in
rosetta.core.scoring.sym_e._core_scoring_sym_e_
)
set_input_pose()
(in
CoarseRNA_LoopCloser
)
setup_for_scoring()
(in
ChainbreakEnergy
)
symEnergyAP
(in
rosetta.core.scoring.sym_e._core_scoring_sym_e_
)
set_input_pose()
(in
ExtraThreadingMover
)
setup_for_scoring()
(in
ChemicalShiftAnisotropyEnergy
)
symEnergyCAP
(in
rosetta.core.scoring.sym_e._core_scoring_sym_e_
)
set_input_pose()
(in
LoopRelaxMover
)
setup_for_scoring()
(in
ContactOrderEnergy
)
SymEnergyCutRotamerTrialsMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
LoopRelaxThreadingMover
)
setup_for_scoring()
(in
ContextDependentLRTwoBodyEnergy
)
SymEnergyCutRotamerTrialsMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
MultiThreadingMover
)
setup_for_scoring()
(in
ContextDependentOneBodyEnergy
)
SymEnergyCutRotamerTrialsMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
PartialThreadingMover
)
setup_for_scoring()
(in
ContextDependentTwoBodyEnergy
)
SymFoldandDockMoveRbJumpMover
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
RecoverSideChainsMover
)
setup_for_scoring()
(in
ContextIndependentLRTwoBodyEnergy
)
SymFoldandDockMoveRbJumpMoverAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
StealLigandMover
)
setup_for_scoring()
(in
ContextIndependentOneBodyEnergy
)
SymFoldandDockMoveRbJumpMoverCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
StealSideChainsMover
)
setup_for_scoring()
(in
ContextIndependentTwoBodyEnergy
)
SymFoldandDockMoveRbJumpMoverCreator
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
ThreadingMover
)
setup_for_scoring()
(in
CustomAtomPairEnergy
)
SymFoldandDockMoveRbJumpMoverCreatorAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
ContactMap
)
setup_for_scoring()
(in
D2H_SA_Energy
)
SymFoldandDockMoveRbJumpMoverCreatorCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
FitBfactorsMover
)
setup_for_scoring()
(in
DNA_BaseEnergy
)
SymFoldandDockRbTrialMover
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
LoadDensityMapMover
)
setup_for_scoring()
(in
DipolarCouplingEnergy
)
SymFoldandDockRbTrialMoverAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
RecomputeDensityMapMover
)
setup_for_scoring()
(in
DirectReadoutEnergy
)
SymFoldandDockRbTrialMoverCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
SetCrystWeightMover
)
setup_for_scoring()
(in
DistanceChainbreakEnergy
)
SymFoldandDockRbTrialMoverCreator
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
SetRefinementOptionsMover
)
setup_for_scoring()
(in
EnergyMethod
)
SymFoldandDockRbTrialMoverCreatorAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
TagPoseWithRefinementStatsMover
)
setup_for_scoring()
(in
EnvEnergy
)
SymFoldandDockRbTrialMoverCreatorCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
UpdateSolventMover
)
setup_for_scoring()
(in
EnvSmoothEnergy
)
SymFoldandDockSlideTrialMover
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
CreateAngleConstraint
)
setup_for_scoring()
(in
Fa_MbenvEnergy
)
SymFoldandDockSlideTrialMoverAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
CreateDistanceConstraint
)
setup_for_scoring()
(in
Fa_MbsolvEnergy
)
SymFoldandDockSlideTrialMoverCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
CreateTorsionConstraint
)
setup_for_scoring()
(in
FreeDOF_Energy
)
SymFoldandDockSlideTrialMoverCreator
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
DeclareBond
)
setup_for_scoring()
(in
GaussianOverlapEnergy
)
SymFoldandDockSlideTrialMoverCreatorAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
PeptideStubMover
)
setup_for_scoring()
(in
GenBornEnergy
)
SymFoldandDockSlideTrialMoverCreatorCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
ddGMover
)
setup_for_scoring()
(in
GoapEnergy
)
symhash64()
(in
xyzTransform_T_double_T
)
set_input_pose()
(in
GreedyOptMutationMover
)
setup_for_scoring()
(in
HybridVDW_Energy
)
symhash64()
(in
xyzTransform_T_float_T
)
set_input_pose()
(in
ParetoOptMutationMover
)
setup_for_scoring()
(in
IntermolEnergy
)
SymInterfaceSidechainMinMover
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
DesignProteinBackboneAroundDNA
)
setup_for_scoring()
(in
LK_BallEnergy
)
SymInterfaceSidechainMinMoverAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
DnaInterfaceMinMover
)
setup_for_scoring()
(in
LK_PolarNonPolarEnergy
)
SymInterfaceSidechainMinMoverCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
DnaInterfaceMultiStateDesign
)
setup_for_scoring()
(in
LK_hack
)
symm_info()
(in
SymmOnTheFlyInteractionGraph
)
set_input_pose()
(in
DnaInterfacePacker
)
setup_for_scoring()
(in
LinearChainbreakEnergy
)
SymmData
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
SeparateDnaFromNonDna
)
setup_for_scoring()
(in
LongRangeTwoBodyEnergy
)
SymmDataAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
ConformerSwitchMover
)
setup_for_scoring()
(in
MMBondAngleEnergy
)
SymmDataCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockMCMCycle
)
setup_for_scoring()
(in
MMBondLengthEnergy
)
SymmDataLoader
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockMCMProtocol
)
setup_for_scoring()
(in
MMLJEnergyInter
)
SymmDataLoaderAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockMinMover
)
setup_for_scoring()
(in
MMLJEnergyIntra
)
SymmDataLoaderCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockSetupMover
)
setup_for_scoring()
(in
MMTorsionEnergy
)
SymmDataLoaderCreator
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingEnsemblePrepackProtocol
)
setup_for_scoring()
(in
MembraneCbetaEnergy
)
SymmDataLoaderCreatorAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingHighRes
)
setup_for_scoring()
(in
MembraneCenPairEnergy
)
SymmDataLoaderCreatorCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingHighResLegacy
)
setup_for_scoring()
(in
MembraneEnvEnergy
)
SymmDataOptions
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingInitialPerturbation
)
setup_for_scoring()
(in
MembraneEnvPenalties
)
SymmDataOptionsAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingLowRes
)
setup_for_scoring()
(in
MembraneEnvSmoothEnergy
)
SymmDataOptionsCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingLowResEnsemble
)
setup_for_scoring()
(in
MembraneLipo
)
SymmDataOptionsCreator
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingPrepackProtocol
)
setup_for_scoring()
(in
MissingEnergy
)
SymmDataOptionsCreatorAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingProtocol
)
setup_for_scoring()
(in
NMerPSSMEnergy
)
SymmDataOptionsCreatorCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
DockingSlideIntoContact
)
setup_for_scoring()
(in
NMerRefEnergy
)
symmetric_components()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
set_input_pose()
(in
EllipsoidalRandomizationMover
)
setup_for_scoring()
(in
NMerSVMEnergy
)
symmetric_docking
(in
rosetta.protocols
)
set_input_pose()
(in
FaDockingSlideIntoContact
)
setup_for_scoring()
(in
OmegaTetherEnergy
)
symmetric_pack_rotamers()
(in
rosetta.core.pack._core_pack_
)
set_input_pose()
(in
InterfaceSidechainMinMover
)
setup_for_scoring()
(in
OneBodyEnergy
)
symmetric_pack_rotamers_run()
(in
rosetta.core.pack._core_pack_
)
set_input_pose()
(in
SidechainMinMover
)
setup_for_scoring()
(in
OtherPoseEnergy
)
symmetric_pack_rotamers_setup()
(in
rosetta.core.pack._core_pack_
)
set_input_pose()
(in
TemperedDocking
)
setup_for_scoring()
(in
P_AA_Energy
)
symmetric_rotamer_trials()
(in
rosetta.core.pack._core_pack_
)
set_input_pose()
(in
MPDockingMover
)
setup_for_scoring()
(in
P_AA_pp_Energy
)
symmetric_sequence()
(in
SetupNCSMover
)
set_input_pose()
(in
MPDockingSetupMover
)
setup_for_scoring()
(in
PackStatEnergy
)
symmetric_task()
(in
RestrictToInterface
)
set_input_pose()
(in
SaneDockingProtocol
)
setup_for_scoring()
(in
PairEnergy
)
symmetric_transform()
(in
SymmOnTheFlyInteractionGraph
)
set_input_pose()
(in
AddAssemblyConstraints
)
setup_for_scoring()
(in
PeptideBondEnergy
)
SymmetricAddMembraneMover
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
set_input_pose()
(in
AssembleLinkerMover
)
setup_for_scoring()
(in
PoissonBoltzmannEnergy
)
SymmetricAddMembraneMoverAP
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
set_input_pose()
(in
CombineChainsMover
)
setup_for_scoring()
(in
ProClosureEnergy
)
SymmetricAddMembraneMoverCAP
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
set_input_pose()
(in
PostDockAssemblyScorer
)
setup_for_scoring()
(in
ProQ_Energy
)
SymmetricAddMembraneMoverCreator
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
set_input_pose()
(in
BfactorFittingMover
)
setup_for_scoring()
(in
RG_Energy_Fast
)
SymmetricAddMembraneMoverCreatorAP
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
set_input_pose()
(in
DensityMorphingMover
)
setup_for_scoring()
(in
RG_LocalEnergy
)
SymmetricAddMembraneMoverCreatorCAP
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
set_input_pose()
(in
ReportFSC
)
setup_for_scoring()
(in
RMS_Energy
)
symmetrical_allow_hbonds()
(in
SymmetricScoreFunction
)
set_input_pose()
(in
ScaleMapIntensities
)
setup_for_scoring()
(in
Rama2BOffsetEnergy
)
SymmetricConformation
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
SetupForDensityScoringMover
)
setup_for_scoring()
(in
RamachandranEnergy
)
SymmetricConformationAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
ClientMover
)
setup_for_scoring()
(in
RamachandranEnergy2B
)
SymmetricConformationCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
CoMTrackerCM
)
setup_for_scoring()
(in
ReferenceEnergy
)
SymmetricEnergies
(in
rosetta.core.scoring.symmetry._core_scoring_symmetry_
)
set_input_pose()
(in
EnvMover
)
setup_for_scoring()
(in
ReferenceEnergyNoncanonical
)
SymmetricEnergiesAP
(in
rosetta.core.scoring.symmetry._core_scoring_symmetry_
)
set_input_pose()
(in
ScriptCM
)
setup_for_scoring()
(in
ResidualDipolarCouplingEnergy
)
SymmetricEnergiesCAP
(in
rosetta.core.scoring.symmetry._core_scoring_symmetry_
)
set_input_pose()
(in
MultipleDomainMover
)
setup_for_scoring()
(in
ResidualDipolarCouplingEnergy_Rohl
)
SymmetricLigandEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RNA_DeNovoProtocol
)
setup_for_scoring()
(in
SA_Energy
)
SymmetricLigandEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RNA_FragmentMover
)
setup_for_scoring()
(in
SecondaryStructureEnergy
)
SymmetricLigandEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RNA_LoopCloser
)
setup_for_scoring()
(in
SequenceDependentRefEnergy
)
SymmetricLigandEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RNA_Minimizer
)
setup_for_scoring()
(in
ShortRangeTwoBodyEnergy
)
SymmetricLigandEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
RNA_Relaxer
)
setup_for_scoring()
(in
SmoothCenPairEnergy
)
SymmetricLigandEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
set_input_pose()
(in
ReportToDB
)
setup_for_scoring()
(in
SmoothEnvEnergy
)
SymmetricMotifFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
TrajectoryReportToDB
)
setup_for_scoring()
(in
SuckerEnergy
)
SymmetricMotifFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
SetupForFibrilMover
)
setup_for_scoring()
(in
SymmetricLigandEnergy
)
SymmetricMotifFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
BluePrintBDR
)
setup_for_scoring()
(in
TwoBodyEnergy
)
SymmetricMotifFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
CircularPermutation
)
setup_for_scoring()
(in
UnfoldedStateEnergy
)
SymmetricMotifFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
MatchResiduesMover
)
setup_for_scoring()
(in
WaterAdductHBondEnergy
)
SymmetricMotifFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
SheetConstraintsRCG
)
setup_for_scoring()
(in
WaterAdductIntraEnergy
)
SymmetricRmsdEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
SetAACompositionPotential
)
setup_for_scoring()
(in
WholeStructureEnergy
)
SymmetricRmsdEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
SetSecStructEnergies
)
setup_for_scoring()
(in
YHHPlanarityEnergy
)
SymmetricRmsdEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
set_input_pose()
(in
FlexPacker
)
setup_for_scoring()
(in
pHEnergy
)
SymmetricRMSMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
FlexPepDockingAbInitio
)
setup_for_scoring()
(in
SugarBackboneEnergy
)
SymmetricRMSMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
FlexPepDockingLowRes
)
setup_for_scoring()
(in
DFIRE_Energy
)
SymmetricRMSMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
FlexPepDockingProtocol
)
setup_for_scoring()
(in
NVscore
)
SymmetricRotamerSet_
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
FloppyTailMover
)
setup_for_scoring()
(in
OrbitalsScore
)
SymmetricRotamerSet_AP
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
FlxbbDesign
)
setup_for_scoring()
(in
HolesEnergy
)
SymmetricRotamerSet_CAP
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
FlxbbDesignPack
)
setup_for_scoring()
(in
HolesEnergyRes
)
SymmetricRotamerSetFactory
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
InterlockAroma
)
setup_for_scoring()
(in
SurfEnergy
)
SymmetricRotamerSetFactoryAP
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
BDR
)
setup_for_scoring()
(in
SurfVolEnergy
)
SymmetricRotamerSetFactoryCAP
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
VarLengthBuild
)
setup_for_scoring()
(in
RG_Energy_RNA
)
SymmetricRotamerSets
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
RemodelConstraintGenerator
)
setup_for_scoring()
(in
RNA_BulgeEnergy
)
SymmetricRotamerSetsAP
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
NonlocalFrags
)
setup_for_scoring()
(in
RNA_FullAtomStackingEnergy
)
SymmetricRotamerSetsCAP
(in
rosetta.core.pack.rotamer_set.symmetry._core_pack_rotamer_set_symmetry_
)
set_input_pose()
(in
TorsionFragmentMover
)
setup_for_scoring()
(in
RNA_FullAtomVDW_BasePhosphate
)
SymmetricScoreFunction
(in
rosetta.core.scoring.symmetry._core_scoring_symmetry_
)
set_input_pose()
(in
GeneralizedKIC
)
setup_for_scoring()
(in
RNA_JR_SuiteEnergy
)
SymmetricScoreFunctionAP
(in
rosetta.core.scoring.symmetry._core_scoring_symmetry_
)
set_input_pose()
(in
AnchoredGraftMover
)
setup_for_scoring()
(in
RNA_LJ_BaseEnergy
)
SymmetricScoreFunctionCAP
(in
rosetta.core.scoring.symmetry._core_scoring_symmetry_
)
set_input_pose()
(in
CCDEndsGraftMover
)
setup_for_scoring()
(in
RNA_Mg_Energy
)
symmetrize_by_intersection()
(in
PackerTask
)
set_input_pose()
(in
GraftMoverBase
)
setup_for_scoring()
(in
RNA_PairwiseLowResolutionEnergy
)
symmetrize_by_intersection()
(in
PackerTask_
)
set_input_pose()
(in
DeleteRegionMover
)
setup_for_scoring()
(in
RNA_SugarCloseEnergy
)
symmetrize_by_union()
(in
PackerTask
)
set_input_pose()
(in
InsertPoseIntoPoseMover
)
setup_for_scoring()
(in
RNA_SuiteEnergy
)
symmetrize_by_union()
(in
PackerTask_
)
set_input_pose()
(in
KeepRegionMover
)
setup_for_scoring()
(in
RNA_TorsionEnergy
)
symmetrize_fold_tree()
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
ReplaceRegionMover
)
setup_for_scoring()
(in
RNA_VDW_Energy
)
symmetrize_fold_tree()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
set_input_pose()
(in
BackboneGridSampler
)
setup_for_scoring()
(in
StackElecEnergy
)
symmetrize_scorefunction()
(in
rosetta.core.scoring.symmetry._core_scoring_symmetry_
)
set_input_pose()
(in
BundleGridSampler
)
setup_for_scoring()
(in
RNA_ChemicalShiftEnergy
)
symmetrize_spans()
(in
rosetta.protocols.membrane.symmetry._protocols_membrane_symmetry_
)
set_input_pose()
(in
FitSimpleHelix
)
setup_for_scoring()
(in
RNA_ChemicalMappingEnergy
)
symmetry
(in
rosetta.core.conformation
)
set_input_pose()
(in
MakeBundle
)
setup_for_scoring()
(in
RNA_DataBackboneEnergy
)
symmetry
(in
rosetta.core.optimization
)
set_input_pose()
(in
MakeBundleHelix
)
setup_for_scoring()
(in
FastSAXSEnergy
)
symmetry
(in
rosetta.core.pack.rotamer_set
)
set_input_pose()
(in
PerturbBundle
)
setup_for_scoring()
(in
SAXSEnergy
)
symmetry
(in
rosetta.core.pose
)
set_input_pose()
(in
PerturbBundleHelix
)
setup_for_scoring()
(in
symEnergy
)
symmetry
(in
rosetta.core.scoring
)
set_input_pose()
(in
BackboneTorsionPerturbation
)
setup_for_scoring()
(in
IgnoreSubsetConstraintSet
)
symmetry
(in
rosetta.protocols.membrane
)
set_input_pose()
(in
BackboneTorsionSampler
)
setup_for_scoring()
(in
AmbiguousMultiConstraint
)
symmetry
(in
rosetta.protocols.simple_moves
)
set_input_pose()
(in
CartesianHybridize
)
setup_for_scoring()
(in
BindingSiteConstraint
)
symmetry()
(in
MakeBundle
)
set_input_pose()
(in
CartesianSampler
)
setup_for_scoring()
(in
COMCoordinateConstraint
)
symmetry_copies()
(in
MakeBundle
)
set_input_pose()
(in
ChunkTrialMover
)
setup_for_scoring()
(in
MaxSeqSepConstraintSet
)
symmetry_definition()
(in
RelativePoseFilter
)
set_input_pose()
(in
DomainAssembly
)
setup_for_scoring()
(in
SequenceCoupling1BDConstraint
)
symmetry_duplicate()
(in
SymmetryClaimer
)
set_input_pose()
(in
FoldTreeHybridize
)
setup_for_scoring()
(in
SequenceCouplingConstraint
)
Symmetry_Info()
(in
SymmetricConformation
)
set_input_pose()
(in
HybridizeProtocol
)
setup_for_scoring()
(in
AACompositionEnergy
)
symmetry_info()
(in
BinarySilentStruct
)
set_input_pose()
(in
InsertChunkMover
)
setup_for_scoring()
(in
NatbiasSecondaryStructureEnergy
)
symmetry_info()
(in
RigidBodySilentStruct
)
set_input_pose()
(in
MRMover
)
setup_for_scoring()
(in
PocketConstraint
)
symmetry_info()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
set_input_pose()
(in
WeightedFragmentSmoothTrialMover
)
setup_for_scoring()
(in
EnsembleEnergy
)
SymmetryClaim
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
set_input_pose()
(in
WeightedFragmentTrialMover
)
setup_for_scoring()
(in
InterchainEnvEnergy
)
SymmetryClaimAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
set_input_pose()
(in
IdealizeMover
)
setup_for_scoring()
(in
InterchainPairEnergy
)
SymmetryClaimCAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
set_input_pose()
(in
BalancedKicMover
)
setup_for_scoring()
(in
ResidualDipolarCouplingEnergyRigidSegments
)
SymmetryClaimer
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_input_pose()
(in
KicMover
)
setup_for_scoring()
(in
SpecialRotamerEnergy
)
SymmetryClaimerAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_input_pose()
(in
AddHydrogen
)
setup_for_scoring()
(in
PCS_Energy
)
SymmetryClaimerCAP
(in
rosetta.protocols.topology_broker._protocols_topology_broker_'
)
set_input_pose()
(in
AddHydrogens
)
setup_for_scoring()
(in
PcsEnergy
)
SymmetryInfo
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
CompoundTranslate
)
setup_for_scoring()
(in
PCS_Energy_Ts1
)
SymmetryInfoAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
ComputeLigandRDF
)
setup_for_scoring()
(in
PCS_Energy_Ts2
)
SymmetryInfoCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
FinalMinimizer
)
setup_for_scoring()
(in
PCS_Energy_Ts3
)
SymmetrySlider
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
GrowLigand
)
setup_for_scoring()
(in
PCS_Energy_Ts4
)
SymmetrySliderAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
HighResDocker
)
setup_for_scoring()
(in
PDDFEnergy
)
SymmetrySliderCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
InterfaceScoreCalculator
)
setup_for_scoring_()
(in
AnalyticEtableEnergy
)
SymMinimizerMap
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
LigandDesign
)
setup_for_scoring_()
(in
TableLookupEtableEnergy
)
SymMinimizerMapAP
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
MinimizeBackbone
)
setup_for_scoring_for_residue()
(in
DunbrackEnergy
)
SymMinimizerMapCAP
(in
rosetta.core.optimization.symmetry._core_optimization_symmetry_
)
set_input_pose()
(in
MinimizeLigand
)
setup_for_scoring_for_residue()
(in
CenRotDunEnergy
)
SymMinMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
RandomConformerMover
)
setup_for_scoring_for_residue()
(in
HPatchEnergy
)
SymMinMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
RandomConformers
)
setup_for_scoring_for_residue()
(in
SurfaceEnergy
)
SymMinMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
RigidSearchMover
)
setup_for_scoring_for_residue()
(in
CarbonHBondEnergy
)
SymMinMoverCreator
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
Rotate
)
setup_for_scoring_for_residue()
(in
ConstraintsEnergy
)
SymMinMoverCreatorAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
Rotates
)
setup_for_scoring_for_residue()
(in
FullatomCustomPairDistanceEnergy
)
SymMinMoverCreatorCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
SlideTogether
)
setup_for_scoring_for_residue()
(in
CentroidDisulfideEnergy
)
SymmLinearMemEdge
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
StartFrom
)
setup_for_scoring_for_residue()
(in
DisulfideMatchingEnergy
)
SymmLinearMemEdgeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
TetherLigand
)
setup_for_scoring_for_residue()
(in
FullatomDisulfideEnergy
)
SymmLinearMemEdgeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
Transform
)
setup_for_scoring_for_residue()
(in
DNAChiEnergy
)
SymmLinearMemNode
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
Translate
)
setup_for_scoring_for_residue()
(in
DNATorsionEnergy
)
SymmLinearMemNodeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
UnconstrainedTorsionsMover
)
setup_for_scoring_for_residue()
(in
FA_ElecEnergy
)
SymmLinearMemNodeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
WriteLigandMolFile
)
setup_for_scoring_for_residue()
(in
FA_ElecEnergyAroAll
)
SymmLinearMemoryInteractionGraph
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopBuildMover
)
setup_for_scoring_for_residue()
(in
FA_ElecEnergyAroAro
)
SymmLinearMemoryInteractionGraphAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopmodelWrapper
)
setup_for_scoring_for_residue()
(in
FA_GrpElecEnergy
)
SymmLinearMemoryInteractionGraphCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopBuilder
)
setup_for_scoring_for_residue()
(in
RNA_FA_ElecEnergy
)
SymmMinimalistEdge
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopModeler
)
setup_for_scoring_for_residue()
(in
ElecDensAllAtomCenEnergy
)
SymmMinimalistEdgeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopMover
)
setup_for_scoring_for_residue()
(in
ElecDensCenEnergy
)
SymmMinimalistEdgeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopProtocol
)
setup_for_scoring_for_residue()
(in
ElecDensEnergy
)
SymmMinimalistInteractionGraph
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
MinimizationRefiner
)
setup_for_scoring_for_residue()
(in
FastDensEnergy
)
SymmMinimalistInteractionGraphAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
RepackingRefiner
)
setup_for_scoring_for_residue()
(in
PattersonCorrEnergy
)
SymmMinimalistInteractionGraphCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
RotamerTrialsRefiner
)
setup_for_scoring_for_residue()
(in
ElecDensAtomwiseEnergy
)
SymmMinimalistNode
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LegacyKicSampler
)
setup_for_scoring_for_residue()
(in
AnalyticEtableEnergy
)
SymmMinimalistNodeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
AcceptanceCheck
)
setup_for_scoring_for_residue()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
SymmMinimalistNodeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopFilter
)
setup_for_scoring_for_residue()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
SymmOnTheFlyEdge
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopMoverGroup
)
setup_for_scoring_for_residue()
(in
TableLookupEtableEnergy
)
SymmOnTheFlyEdgeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
PrepareForCentroid
)
setup_for_scoring_for_residue()
(in
ContextDependentGeometricSolEnergy
)
SymmOnTheFlyEdgeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
PrepareForFullatom
)
setup_for_scoring_for_residue()
(in
ContextIndependentGeometricSolEnergy
)
SymmOnTheFlyInteractionGraph
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
FastGapMover
)
setup_for_scoring_for_residue()
(in
ExactOccludedHbondSolEnergy
)
SymmOnTheFlyInteractionGraphAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopHashDiversifier
)
setup_for_scoring_for_residue()
(in
OccludedHbondSolEnergy
)
SymmOnTheFlyInteractionGraphCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopHashLibrary
)
setup_for_scoring_for_residue()
(in
OccludedHbondSolEnergy_onebody
)
SymmOnTheFlyNode
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopHashMoverWrapper
)
setup_for_scoring_for_residue()
(in
HackAroEnergy
)
SymmOnTheFlyNodeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
LoopHashRelaxProtocol
)
setup_for_scoring_for_residue()
(in
HBondEnergy
)
SymmOnTheFlyNodeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
set_input_pose()
(in
Mover_LoopHashRefine
)
setup_for_scoring_for_residue()
(in
DDPscore
)
SymPackRotamersMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
FoldTreeFromLoops
)
setup_for_scoring_for_residue()
(in
FaMPEnvEnergy
)
SymPackRotamersMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
CCDLoopClosureMover
)
setup_for_scoring_for_residue()
(in
FaMPEnvSmoothEnergy
)
SymPackRotamersMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
FASelectSlidingWindowLoopClosure
)
setup_for_scoring_for_residue()
(in
FaMPSolvEnergy
)
SymPackRotamersMoverCreator
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
SlidingWindowLoopClosure
)
setup_for_scoring_for_residue()
(in
MPCbetaEnergy
)
SymPackRotamersMoverCreatorAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
WidthFirstSlidingWindowLoopClosure
)
setup_for_scoring_for_residue()
(in
MPEnvEnergy
)
SymPackRotamersMoverCreatorCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
KinematicMover
)
setup_for_scoring_for_residue()
(in
MPNonHelixPenalty
)
SymRestrictTaskForDocking
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
KinematicWrapper
)
setup_for_scoring_for_residue()
(in
MPPairEnergy
)
SymRestrictTaskForDockingAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
LoopCM
)
setup_for_scoring_for_residue()
(in
MPTerminiPenalty
)
SymRestrictTaskForDockingCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
LoopRefineInnerCycle
)
setup_for_scoring_for_residue()
(in
BurialEnergy
)
SymRotamerTrialsMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
LoopRefineInnerCycleContainer
)
setup_for_scoring_for_residue()
(in
CartesianBondedEnergy
)
SymRotamerTrialsMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
RepackTrial
)
setup_for_scoring_for_residue()
(in
CenHBEnergy
)
SymRotamerTrialsMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
ShearMinCCDTrial
)
setup_for_scoring_for_residue()
(in
CenPairEnergy
)
SymRotamerTrialsMoverCreator
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
SmallMinCCDTrial
)
setup_for_scoring_for_residue()
(in
CenRotEnvEnergy
)
SymRotamerTrialsMoverCreatorAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
MakeRotLibMover
)
setup_for_scoring_for_residue()
(in
CenRotPairEnergy
)
SymRotamerTrialsMoverCreatorCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
MatcherMover
)
setup_for_scoring_for_residue()
(in
ContextDependentLRTwoBodyEnergy
)
SymShakeStructureMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
ExtractSubposeMover
)
setup_for_scoring_for_residue()
(in
ContextDependentOneBodyEnergy
)
SymShakeStructureMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
MatDesGreedyOptMutationMover
)
setup_for_scoring_for_residue()
(in
ContextDependentTwoBodyEnergy
)
SymShakeStructureMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
set_input_pose()
(in
SchemePlaceMotifsMover
)
setup_for_scoring_for_residue()
(in
ContextIndependentLRTwoBodyEnergy
)
SymSidechainMinMover
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
SymDofMover
)
setup_for_scoring_for_residue()
(in
ContextIndependentOneBodyEnergy
)
SymSidechainMinMoverAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
CartesianMD
)
setup_for_scoring_for_residue()
(in
ContextIndependentTwoBodyEnergy
)
SymSidechainMinMoverCAP
(in
rosetta.protocols.symmetric_docking._protocols_symmetric_docking_
)
set_input_pose()
(in
MDBase
)
setup_for_scoring_for_residue()
(in
CustomAtomPairEnergy
)
SymSlideInfo
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
MedalExchangeMover
)
setup_for_scoring_for_residue()
(in
DNA_BaseEnergy
)
SymSlideInfoAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
MedalMover
)
setup_for_scoring_for_residue()
(in
EnvEnergy
)
SymSlideInfoCAP
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
set_input_pose()
(in
AddMPLigandMover
)
setup_for_scoring_for_residue()
(in
EnvSmoothEnergy
)
SymUnsatHbondFilter
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
AddMembraneMover
)
setup_for_scoring_for_residue()
(in
Fa_MbenvEnergy
)
SymUnsatHbondFilterAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
FlipMover
)
setup_for_scoring_for_residue()
(in
Fa_MbsolvEnergy
)
SymUnsatHbondFilterCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
MembranePositionFromTopologyMover
)
setup_for_scoring_for_residue()
(in
FreeDOF_Energy
)
SymUnsatHbondFilterCreator
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
RandomPositionRotationMover
)
setup_for_scoring_for_residue()
(in
GaussianOverlapEnergy
)
SymUnsatHbondFilterCreatorAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
RandomPositionTranslationMover
)
setup_for_scoring_for_residue()
(in
GenBornEnergy
)
SymUnsatHbondFilterCreatorCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
set_input_pose()
(in
RotationMover
)
setup_for_scoring_for_residue()
(in
GoapEnergy
)
SYN
(in
rosetta.core.chemical.rna
)
set_input_pose()
(in
SetMembraneCenterMover
)
setup_for_scoring_for_residue()
(in
HybridVDW_Energy
)
SYN
(in
ChiState
)
set_input_pose()
(in
SetMembraneNormalMover
)
setup_for_scoring_for_residue()
(in
LK_BallEnergy
)
SYN
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
set_input_pose()
(in
SetMembranePositionMover
)
setup_for_scoring_for_residue()
(in
LK_PolarNonPolarEnergy
)
syn_G_potential_bonus()
(in
RNA_EnergyMethodOptions
)
set_input_pose()
(in
TransformIntoMembraneMover
)
setup_for_scoring_for_residue()
(in
LK_hack
)
sync_objects_with_flags()
(in
AntibodyModelerProtocol
)
set_input_pose()
(in
TranslationMover
)
setup_for_scoring_for_residue()
(in
LongRangeTwoBodyEnergy
)
sync_objects_with_flags()
(in
DockingLowRes
)
set_input_pose()
(in
TranslationRotationMover
)
setup_for_scoring_for_residue()
(in
MMBondAngleEnergy
)
sync_objects_with_flags()
(in
DockingProtocol
)
set_input_pose()
(in
SymmetricAddMembraneMover
)
setup_for_scoring_for_residue()
(in
MMBondLengthEnergy
)
sync_objects_with_flags()
(in
TemperedDocking
)
set_input_pose()
(in
VisualizeEmbeddingMover
)
setup_for_scoring_for_residue()
(in
MMLJEnergyInter
)
SYNONYM
(in
CompoundToken
)
set_input_pose()
(in
VisualizeMembraneMover
)
setup_for_scoring_for_residue()
(in
MMLJEnergyIntra
)
SYNONYM
(in
HeaderInformation
)
set_input_pose()
(in
ZincHeterodimerMover
)
setup_for_scoring_for_residue()
(in
MMTorsionEnergy
)
sys_sleep()
(in
rosetta.utility._utility_
)
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