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]
P
p
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
parse_my_tag()
(in
ScoreMover
)
place_d()
(in
KinFunGroupTK
)
p1_deriv()
(in
AngleConstraint
)
parse_my_tag()
(in
SequenceProfileMover
)
place_h()
(in
BruteFunGroupTK
)
p1_theta_deriv()
(in
AngleConstraint
)
parse_my_tag()
(in
SetReturningPackRotamersMover
)
place_h()
(in
FunGroupTK
)
p2_deriv()
(in
AngleConstraint
)
parse_my_tag()
(in
SetTorsion
)
place_h()
(in
KinFunGroupTK
)
P_AA
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
ShakeStructureMover
)
place_origin_point()
(in
NonPlaidFingerprint
)
p_aa
(in
ScoreType
)
parse_my_tag()
(in
ShearMover
)
place_residue()
(in
Motif
)
p_aa
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
ShortBackrubMover
)
place_residue_()
(in
Motif
)
p_aa
(in
rosetta.core.scoring
)
parse_my_tag()
(in
SmallMover
)
place_sidechain_in_pose()
(in
Xfres
)
p_aa
(in
rosetta
)
parse_my_tag()
(in
SuperimposeMover
)
place_stubs()
(in
PlaceSimultaneouslyMover
)
P_AA_Energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
SwitchChainOrderMover
)
placeholder_info()
(in
GenBornPoseInfo
)
P_AA_energy()
(in
P_AA
)
parse_my_tag()
(in
SwitchResidueTypeSetMover
)
placeholder_residue()
(in
GenBornPoseInfo
)
P_AA_EnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
TailsScoreMover
)
PlacementAuctionMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_EnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
TaskAwareMinMover
)
PlacementAuctionMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_EnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
TorsionDOFMover
)
PlacementAuctionMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_EnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
TorsionSetMover
)
PlacementAuctionMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_EnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
Tumble
)
PlacementAuctionMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_aa_pp
(in
ScoreType
)
parse_my_tag()
(in
UniformRotationMover
)
PlacementAuctionMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_aa_pp
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
UniformTranslationMover
)
PlacementMinimizationMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_aa_pp
(in
rosetta.core.scoring
)
parse_my_tag()
(in
VirtualRootMover
)
PlacementMinimizationMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_aa_pp
(in
rosetta
)
parse_my_tag()
(in
ddG
)
PlacementMinimizationMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_pp_Energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
AsymFoldandDockMoveRbJumpMover
)
PlacementMinimizationMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_pp_energy()
(in
P_AA
)
parse_my_tag()
(in
AsymFoldandDockRbTrialMover
)
PlacementMinimizationMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_pp_EnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
InitializeByBins
)
PlacementMinimizationMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_pp_EnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
PerturbByBins
)
PlaceOnLoop
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_pp_EnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
ChiralMover
)
PlaceOnLoopAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_pp_EnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
HbsPatcher
)
PlaceOnLoopCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_AA_pp_EnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
OopDPuckMinusMover
)
PlaceOnLoopCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_aa_pp_offset
(in
ScoreType
)
parse_my_tag()
(in
OopDPuckPlusMover
)
PlaceOnLoopCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_aa_pp_offset
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
OopMover
)
PlaceOnLoopCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_aa_pp_offset
(in
rosetta.core.scoring
)
parse_my_tag()
(in
OopPatcher
)
PlaceProbeMover
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
p_aa_pp_offset
(in
rosetta
)
parse_my_tag()
(in
OopPuckMinusMover
)
PlaceProbeMoverAP
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
P_AAAP
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
OopPuckPlusMover
)
PlaceProbeMoverCAP
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
P_AACAP
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
OopRandomPuckMover
)
placeResidueAtTransform()
(in
StubGenerator
)
p_atom_index()
(in
RNA_ResidueType
)
parse_my_tag()
(in
OopRandomSmallMover
)
placeResidueOnPose()
(in
StubGenerator
)
p_i_given_iplus1()
(in
BinTransitionCalculator
)
parse_my_tag()
(in
RationalMonteCarlo
)
PlaceSimultaneouslyMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_iplus1_given_i()
(in
BinTransitionCalculator
)
parse_my_tag()
(in
JumpRotamerSidechainMover
)
PlaceSimultaneouslyMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
P_omega0()
(in
rosetta.numeric.crick_equations._numeric_crick_equations_
)
parse_my_tag()
(in
PerturbChiSidechainMover
)
PlaceSimultaneouslyMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
p_value()
(in
AdaptiveScoreHistogram
)
parse_my_tag()
(in
PerturbRotamerSidechainMover
)
PlaceSimultaneouslyMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
pack
(in
rosetta.core
)
parse_my_tag()
(in
SetChiMover
)
PlaceSimultaneouslyMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
PACK
(in
rosetta.protocols.stepwise.screener
)
parse_my_tag()
(in
SidechainMCMover
)
PlaceSimultaneouslyMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
PACK
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
SidechainMover
)
PlaceStubMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
PACK
(in
StepWiseScreenerType
)
parse_my_tag()
(in
SidechainMoverBase
)
PlaceStubMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
pack_all_side_chains()
(in
StepWisePacker
)
parse_my_tag()
(in
DetectSymmetry
)
PlaceStubMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
pack_daemon
(in
rosetta.protocols
)
parse_my_tag()
(in
ExtractAsymmetricPoseMover
)
PlaceStubMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
pack_missing_sidechains()
(in
ImportPoseOptions
)
parse_my_tag()
(in
ExtractAsymmetricUnitMover
)
PlaceStubMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
pack_missing_sidechains()
(in
rosetta.core.pack._core_pack_
)
parse_my_tag()
(in
FaSymDockingSlideTogether
)
PlaceStubMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
pack_o2prime_hydrogens()
(in
StepWisePacker
)
parse_my_tag()
(in
SetupForSymmetryMover
)
PlaceSurfaceProbe
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
pack_phosphate_penalty()
(in
FreeDOF_Options
)
parse_my_tag()
(in
SetupNCSMover
)
PlaceSurfaceProbeAP
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
pack_polar_hydrogens()
(in
rosetta.protocols.stepwise.modeler.polar_hydrogens._protocols_stepwise_modeler_polar_hydrogens_
)
parse_my_tag()
(in
SymDockingInitialPerturbation
)
PlaceSurfaceProbeCAP
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
pack_residue()
(in
PackerTask
)
parse_my_tag()
(in
SymDockingSlideIntoContact
)
PlaceSurfaceProbeCreator
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
pack_residue()
(in
PackerTask_
)
parse_my_tag()
(in
SymEnergyCutRotamerTrialsMover
)
PlaceSurfaceProbeCreatorAP
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
PACK_ROTAMERS
(in
rosetta.basic
)
parse_my_tag()
(in
SymMinMover
)
PlaceSurfaceProbeCreatorCAP
(in
rosetta.protocols.hotspot_hashing.movers._protocols_hotspot_hashing_movers_
)
PACK_ROTAMERS
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
SymPackRotamersMover
)
PlaidFingerprint
(in
rosetta.protocols.pockets._protocols_pockets_
)
PACK_ROTAMERS
(in
ProfTag
)
parse_my_tag()
(in
SymRotamerTrialsMover
)
PlaidFingerprintAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
pack_rotamers()
(in
rosetta.core.pack._core_pack_
)
parse_my_tag()
(in
SymShakeStructureMover
)
PlaidFingerprintCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
pack_rotamers_loop()
(in
rosetta.core.pack._core_pack_
)
parse_my_tag()
(in
SymmetricRMSMover
)
PlainPdbJobDistributor
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_rotamers_run()
(in
rosetta.core.pack._core_pack_
)
parse_my_tag()
(in
TaskAwareSymMinMover
)
PlainPdbJobDistributorAP
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_rotamers_setup()
(in
rosetta.core.pack._core_pack_
)
parse_my_tag()
(in
StepWiseProteinMinimizer
)
PlainPdbJobDistributorCAP
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_scorefxn_pose_handshake()
(in
rosetta.core.pack._core_pack_
)
parse_my_tag()
(in
StepWiseProteinPoseSetup
)
PlainRawJobDistributor
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_stat
(in
ScoreType
)
parse_my_tag()
(in
StepWiseRNA_PoseSetup
)
PlainRawJobDistributorAP
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_stat
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
StepWiseConnectionSampler
)
PlainRawJobDistributorCAP
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_stat
(in
rosetta.core.scoring
)
parse_my_tag()
(in
StepWiseMinimizer
)
PlainSilentFileJobDistributor
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_stat
(in
rosetta
)
parse_my_tag()
(in
StepWiseModeler
)
PlainSilentFileJobDistributorAP
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
pack_weights()
(in
StepWiseProteinModelerOptions
)
parse_my_tag()
(in
StepWiseBasicModelerOptions
)
PlainSilentFileJobDistributorCAP
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
PACKABLE
(in
LayerSpecificationType
)
parse_my_tag()
(in
StepWiseModelerOptions
)
Pleating()
(in
Pairing
)
PACKABLE
(in
LayerDesignOperation
)
parse_my_tag()
(in
StepWiseProteinModelerOptions
)
pleats1()
(in
StrandPairing
)
packable()
(in
DesignableResiduesFilter
)
parse_my_tag()
(in
StepWiseRNA_ModelerOptions
)
pleats2()
(in
StrandPairing
)
packable()
(in
MutationsFilter
)
parse_my_tag()
(in
SideChainCopier
)
Ploop2x3
(in
rosetta.protocols.fldsgn.topology
)
packable()
(in
ResidueCountFilter
)
parse_my_tag()
(in
StepWisePacker
)
Ploop2x3
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
PackDaemon
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
parse_my_tag()
(in
PolarHydrogenPacker
)
Ploop2x3
(in
SheetFoldType
)
PackDaemonAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
parse_my_tag()
(in
PrecomputedLibraryMover
)
Ploop3x3
(in
rosetta.protocols.fldsgn.topology
)
PackDaemonCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
parse_my_tag()
(in
StepWiseProteinBackboneSampler
)
Ploop3x3
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
packed_residues()
(in
SidechainMover
)
parse_my_tag()
(in
StepWiseProteinCCD_Closer
)
Ploop3x3
(in
SheetFoldType
)
packed_residues()
(in
SidechainMoverBase
)
parse_my_tag()
(in
StepWiseProteinCCD_MultiPoseCloser
)
plot_graph()
(in
PyMOLMover
)
packed_rotno_2_rotwell()
(in
SingleResidueDunbrackLibrary
)
parse_my_tag()
(in
StepWiseProteinKIC_LoopBridger
)
PLUS_SYMBOL
(in
rosetta.numeric.expression_parser
)
packed_rotno_2_rotwell()
(in
SingleResiduePeptoidLibrary
)
parse_my_tag()
(in
BulgeApplyMover
)
PLUS_SYMBOL
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
packer
(in
rosetta.protocols.stepwise.modeler
)
parse_my_tag()
(in
BulgeUnApplyMover
)
PLUS_SYMBOL
(in
TokenType
)
packer()
(in
StepWiseMasterPacker
)
parse_my_tag()
(in
RNA_ChainClosureChecker
)
pmut_scan
(in
rosetta.protocols
)
PackerEnergyAdd()
(in
SymmetricRotamerSet_
)
parse_my_tag()
(in
RNA_HelixAssembler
)
PNatAAOptEPositionData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerEnergyMultiply()
(in
SymmetricRotamerSet_
)
parse_my_tag()
(in
O2PrimePacker
)
PNatAAOptEPositionDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerEnergySubtract()
(in
SymmetricRotamerSet_
)
parse_my_tag()
(in
MultiPhosphateSampler
)
PNatAAOptEPositionDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerNeighborGraphFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
PhosphateMover
)
PNatAAOptERotamerData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerNeighborGraphFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
SugarInstantiateMover
)
PNatAAOptERotamerDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerNeighborGraphFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
SugarVirtualizeMover
)
PNatAAOptERotamerDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerTask
(in
rosetta.core.pack.task._core_pack_task_
)
parse_my_tag()
(in
VirtualSugarJustInTimeInstantiator
)
PNatLigPoseOptEData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
packertask()
(in
DesignTask
)
parse_my_tag()
(in
VirtualSugarSampler
)
PNatLigPoseOptEDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerTask_
(in
rosetta.core.pack.task._core_pack_task_
)
parse_my_tag()
(in
VirtualSugarSamplerFromStringList
)
PNatLigPoseOptEDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerTask_AP
(in
rosetta.core.pack.task._core_pack_task_
)
parse_my_tag()
(in
StepWiseMonteCarlo
)
PNatRotOptEPositionData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerTask_CAP
(in
rosetta.core.pack.task._core_pack_task_
)
parse_my_tag()
(in
AddMover
)
PNatRotOptEPositionDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerTaskAP
(in
rosetta.core.pack.task._core_pack_task_
)
parse_my_tag()
(in
AddOrDeleteMover
)
PNatRotOptEPositionDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerTaskCAP
(in
rosetta.core.pack.task._core_pack_task_
)
parse_my_tag()
(in
DeleteMover
)
PNatRotOptERotamerData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
PackerTaskSymmetryStatus
(in
rosetta.core.pack.task._core_pack_task_
)
parse_my_tag()
(in
FromScratchMover
)
PNatRotOptERotamerDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
packing
(in
rosetta.core.scoring
)
parse_my_tag()
(in
ResampleMover
)
PNatRotOptERotamerDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
packing_angle_enum_to_string()
(in
AntibodyEnumManager
)
parse_my_tag()
(in
StepWiseMasterMover
)
PNatStructureOptEData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
packing_angle_string_to_enum()
(in
AntibodyEnumManager
)
parse_my_tag()
(in
StepWiseMonteCarloOptions
)
PNatStructureOptEDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
packing_interaction_cutoff()
(in
GenBornEnergy
)
parse_my_tag()
(in
RNA_AddDeleteMonteCarlo
)
PNatStructureOptEDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
packing_shell()
(in
RelativePoseFilter
)
parse_my_tag()
(in
RNA_O2PrimeMover
)
pocket_constraint
(in
ScoreType
)
PackingAngleEnum
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_my_tag()
(in
RNA_TorsionMover
)
pocket_constraint
(in
rosetta.core.scoring._core_scoring_
)
PackingAngleEnum_start
(in
rosetta.protocols.antibody
)
parse_my_tag()
(in
StepWiseBasicOptions
)
pocket_constraint
(in
rosetta.core.scoring
)
PackingAngleEnum_start
(in
PackingAngleEnum
)
parse_my_tag()
(in
JumpStepWiseSampler
)
pocket_constraint
(in
rosetta
)
PackingAngleEnum_start
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_my_tag()
(in
MC_Comb
)
PocketConstraint
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingAngleEnum_total
(in
rosetta.protocols.antibody
)
parse_my_tag()
(in
MC_OneTorsion
)
PocketConstraintAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingAngleEnum_total
(in
PackingAngleEnum
)
parse_my_tag()
(in
NoOpStepWiseSampler
)
PocketConstraintCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingAngleEnum_total
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_my_tag()
(in
StepWiseSamplerAny
)
PocketConstraintCreator
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingScore
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
StepWiseSamplerComb
)
PocketConstraintCreatorAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingScoreAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
StepWiseSamplerOneTorsion
)
PocketConstraintCreatorCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingScoreCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
StepWiseSamplerOneValue
)
PocketExemplarMultifunc
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingScoreResData
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
StepWiseSamplerOneValueComb
)
PocketExemplarMultifuncAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingScoreResDataAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
StepWiseSamplerSized
)
PocketExemplarMultifuncCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackingScoreResDataCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
StepWiseSamplerSizedAny
)
PocketGrid
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackRotamersMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
StepWiseSamplerSizedComb
)
PocketGridAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackRotamersMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
CopyDofStepWiseSampler
)
PocketGridCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
PackRotamersMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
ResidueAlternativeStepWiseSampler
)
pockets
(in
rosetta.protocols
)
PackRotamersMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
ResidueAlternativeStepWiseSamplerComb
)
Point
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
PackRotamersMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
ResidueListStepWiseSampler
)
Point
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
PackRotamersMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
InputStreamStepWiseSampler
)
point()
(in
HomogeneousTransform_T_double_T
)
PackRotamersMoverLazy
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
ProteinBetaAntiParallelStepWiseSampler
)
point()
(in
KDNode
)
PackRotamersMoverLazyAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
ProteinFragmentStepWiseSampler
)
point_for_nonchitip_atom()
(in
UpstreamResTypeGeometry
)
PackRotamersMoverLazyCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
ProteinMainChainStepWiseSampler
)
point_on_ellipsoid()
(in
EllipsoidalRandomizationMover
)
PackRotamersMoverLazyCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyStepWiseSampler
)
PointAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
PackRotamersMoverLazyCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
PointAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
PackRotamersMoverLazyCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyStepWiseSamplerWithResidueList
)
PointCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
PackScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
RNA_ChiStepWiseSampler
)
PointCAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
PackScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
RNA_KIC_Sampler
)
pointer
(in
rosetta.utility
)
PackScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
RNA_KinematicCloser
)
PointGraphEdgeData
(in
rosetta.core.conformation._core_conformation_
)
packstat
(in
rosetta.core.scoring
)
parse_my_tag()
(in
RNA_MC_MultiSuite
)
PointGraphEdgeDataAP
(in
rosetta.core.conformation._core_conformation_
)
PackstatCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
parse_my_tag()
(in
RNA_MC_Sugar
)
PointGraphEdgeDataCAP
(in
rosetta.core.conformation._core_conformation_
)
PackstatCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
parse_my_tag()
(in
RNA_MC_Suite
)
PointGraphPy
(in
rosetta.core.conformation._core_conformation_
)
PackstatCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
parse_my_tag()
(in
RNA_NucleosideStepWiseSampler
)
PointGraphPyAP
(in
rosetta.core.conformation._core_conformation_
)
PackStatEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
RNA_SugarStepWiseSampler
)
PointGraphPyCAP
(in
rosetta.core.conformation._core_conformation_
)
PackStatEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
RNA_SuiteStepWiseSampler
)
PointGraphVertexData
(in
rosetta.core.conformation._core_conformation_
)
PackStatEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
StepWiseCSA_JobDistributor
)
PointGraphVertexDataAP
(in
rosetta.core.conformation._core_conformation_
)
PackStatEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
StepWiseJobDistributor
)
PointGraphVertexDataCAP
(in
rosetta.core.conformation._core_conformation_
)
PackStatEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
StepWiseMonteCarloJobDistributor
)
PointMutationCalculator
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
PackStatEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
CentroidRelaxMover
)
PointMutationCalculatorAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
PackStatFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
FullatomRelaxMover
)
PointMutationCalculatorCAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
PackStatFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
SurfaceDockingProtocol
)
PointMutScanDriver
(in
rosetta.protocols.pmut_scan._protocols_pmut_scan_
)
PackStatFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
SurfaceOrientMover
)
PointMutScanDriverAP
(in
rosetta.protocols.pmut_scan._protocols_pmut_scan_
)
PackStatFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
SurfaceVectorOptions
)
PointMutScanDriverCAP
(in
rosetta.protocols.pmut_scan._protocols_pmut_scan_
)
PackStatFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
SymDockBaseProtocol
)
PointPair
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
PackStatFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
SymDockProtocol
)
PointPairAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
PackStatMover
(in
rosetta.protocols.analysis._protocols_analysis_
)
parse_my_tag()
(in
SymDockingHiRes
)
PointPairCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
PackStatMoverAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
parse_my_tag()
(in
SymDockingLowRes
)
points_for_nonchitip_atoms()
(in
UpstreamResTypeGeometry
)
PackStatMoverCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
parse_my_tag()
(in
SymFoldandDockMoveRbJumpMover
)
PoissonBoltzmannEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
pair
(in
ScoreType
)
parse_my_tag()
(in
SymFoldandDockRbTrialMover
)
PoissonBoltzmannEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
pair
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
SymFoldandDockSlideTrialMover
)
PoissonBoltzmannEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
pair
(in
rosetta.core.scoring
)
parse_my_tag()
(in
SymInterfaceSidechainMinMover
)
PoissonBoltzmannEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
pair
(in
rosetta
)
parse_my_tag()
(in
SymSidechainMinMover
)
PoissonBoltzmannEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
pair_char_pair_Size_Size
(in
rosetta.core._core_
)
parse_my_tag()
(in
MPSymDockMover
)
PoissonBoltzmannEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
pair_e_method
(in
EnergyMethods
)
parse_my_tag()
(in
AlignPoseToInvrotTreeMover
)
PoissonBoltzmannPotential
(in
rosetta.core.scoring._core_scoring_
)
pair_e_method
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
FragQualCalculator
)
PoissonBoltzmannPotentialAP
(in
rosetta.core.scoring._core_scoring_
)
pair_e_method
(in
rosetta.core.scoring.methods
)
parse_my_tag()
(in
StoreCombinedStoredTasksMover
)
PoissonBoltzmannPotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
pair_energy_H()
(in
AnalyticEtableEnergy
)
parse_my_tag()
(in
StoreCompoundTaskMover
)
POLAR
(in
rosetta.core.chemical
)
pair_energy_H()
(in
AnalyticEtableEvaluator
)
parse_my_tag()
(in
StoreTaskMover
)
POLAR
(in
rosetta.core.chemical._core_chemical_
)
pair_energy_H()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
parse_my_tag()
(in
UnfoldedStateEnergyCalculatorMover
)
POLAR
(in
ResidueProperty
)
pair_energy_H()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
parse_NMR_name()
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
POLAR
(in
rosetta.core.pack.task._core_pack_task_
)
pair_energy_H()
(in
TableLookupEtableEnergy
)
parse_options()
(in
CDRGraftDesignOptionsParser
)
polar_hydrogens
(in
rosetta.protocols.stepwise.modeler
)
pair_energy_H()
(in
TableLookupEvaluator
)
parse_options()
(in
CDRSeqDesignOptionsParser
)
polar_hydrogens()
(in
ResidueType
)
pair_energy_H_v()
(in
AnalyticEtableEvaluator
)
parse_opts()
(in
CartesianMD
)
POLARAP
(in
rosetta.core.pack.task._core_pack_task_
)
pair_energy_H_v()
(in
EtableEvaluator
)
parse_opts()
(in
MinMover
)
POLARCAP
(in
rosetta.core.pack.task._core_pack_task_
)
pair_energy_H_v()
(in
TableLookupEvaluator
)
parse_out_non_standard_residues()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
PolarHydrogenFilter
(in
rosetta.core.chemical._core_chemical_
)
pair_int_int
(in
rosetta.core._core_
)
parse_pdb_file()
(in
StartFrom
)
PolarHydrogenFilterAP
(in
rosetta.core.chemical._core_chemical_
)
pair_int_string
(in
rosetta.core._core_
)
parse_protocol_id_tag_item()
(in
ReportToDB
)
PolarHydrogenFilterCAP
(in
rosetta.core.chemical._core_chemical_
)
pair_list()
(in
Interface
)
parse_protocol_tag()
(in
RosettaScriptsParser
)
PolarHydrogenPacker
(in
rosetta.protocols.stepwise.modeler.polar_hydrogens._protocols_stepwise_modeler_polar_hydrogens_
)
pair_overlap_tolerance()
(in
BumpGrid
)
parse_quota_command_line()
(in
FragmentPicker
)
PolarHydrogenPackerAP
(in
rosetta.protocols.stepwise.modeler.polar_hydrogens._protocols_stepwise_modeler_polar_hydrogens_
)
pair_Real_Real
(in
rosetta.core._core_
)
parse_region_string()
(in
ContactMap
)
PolarHydrogenPackerCAP
(in
rosetta.protocols.stepwise.modeler.polar_hydrogens._protocols_stepwise_modeler_polar_hydrogens_
)
pair_Real_string
(in
rosetta.core._core_
)
parse_relevant_residues_mode_tag_item()
(in
ReportToDB
)
PolycubicSpline
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
pair_sets_with_positions()
(in
PlaceSimultaneouslyMover
)
parse_remove_xray_virt_tag_item()
(in
ReportToDB
)
PolycubicSplineAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
pair_Size_Real
(in
rosetta.core._core_
)
parse_report_format_string()
(in
PeptideDeriverFilter
)
PolycubicSplineCAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
pair_Size_Size
(in
rosetta.core._core_
)
parse_resfile()
(in
rosetta.core.pack.task._core_pack_task_
)
POLYMER
(in
rosetta
)
pair_Size_string
(in
rosetta.core._core_
)
parse_resfile()
(in
FindConsensusSequence
)
POLYMER
(in
rosetta.core.chemical
)
pair_Size_SymDof
(in
rosetta.core._core_
)
parse_resfile()
(in
MSDMover
)
POLYMER
(in
rosetta.core.chemical._core_chemical_
)
pair_SSize_SSize
(in
rosetta.core._core_
)
parse_resfile_string()
(in
rosetta.core.pack.task._core_pack_task_
)
POLYMER
(in
ResidueProperty
)
pair_SSize_string
(in
rosetta.core._core_
)
parse_resfile_string_with_no_lockdown()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
polymer_direction()
(in
Edge
)
pair_string_int
(in
rosetta.core._core_
)
parse_resfiles()
(in
FindConsensusSequence
)
POLYMER_LOWER
(in
ICoorAtomID
)
pair_string_Real
(in
rosetta.core._core_
)
parse_resfiles()
(in
MSDMover
)
POLYMER_LOWER
(in
Type
)
pair_string_Size
(in
rosetta.core._core_
)
parse_residue()
(in
ConstraintIO
)
POLYMER_UPPER
(in
ICoorAtomID
)
pair_string_SSize
(in
rosetta.core._core_
)
parse_resnum()
(in
rosetta.core.pose._core_pose_
)
POLYMER_UPPER
(in
Type
)
pair_string_string
(in
rosetta.core._core_
)
parse_rosettascript()
(in
RosettaScriptsParser
)
polymeric_oriented_sequence_distance()
(in
Residue
)
pair_term_energy()
(in
PairEPotential
)
parse_rosettascript()
(in
rosetta.protocols.rosetta_scripts
)
polymeric_sequence_distance()
(in
Residue
)
pair_term_energy_and_deriv()
(in
PairEPotential
)
parse_schfile()
(in
MDBase
)
Polynomial_1d
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
pair_term_energy_exists()
(in
PairEPotential
)
parse_score_function()
(in
DesignProteinBackboneAroundDNA
)
Polynomial_1d
(in
rosetta.numeric._numeric_
)
pair_with_scaffold()
(in
HotspotStubSet
)
parse_score_function()
(in
DnaInterfaceMultiStateDesign
)
Polynomial_1dAP
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
paired()
(in
Dssp
)
parse_score_function()
(in
DnaInterfacePacker
)
Polynomial_1dAP
(in
rosetta.numeric._numeric_
)
paired()
(in
StrandPairing
)
parse_score_function()
(in
FlxbbDesignPack
)
Polynomial_1dCAP
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
paired()
(in
StrandPairingSet
)
parse_score_function()
(in
PrepackMover
)
Polynomial_1dCAP
(in
rosetta.numeric._numeric_
)
paired()
(in
DnaPosition
)
parse_score_function()
(in
ProteinInterfaceMultiStateDesignMover
)
Pool_ConvergenceCheck
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_score_function()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
Pool_ConvergenceCheckAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_score_function()
(in
MinPackMover
)
Pool_ConvergenceCheckCAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_score_function()
(in
PackRotamersMover
)
Pool_Evaluator
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_score_function()
(in
PackRotamersMoverLazy
)
Pool_EvaluatorAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_score_function()
(in
RepackSidechainsMover
)
Pool_EvaluatorCAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_score_function()
(in
SetReturningPackRotamersMover
)
pool_exists()
(in
HierarchicalLevel
)
PairEPotential
(in
rosetta.core.scoring._core_scoring_
)
parse_score_function()
(in
SymPackRotamersMover
)
Pool_RMSD
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairEPotentialAP
(in
rosetta.core.scoring._core_scoring_
)
parse_scoredef()
(in
rosetta.protocols.elscripts._protocols_elscripts_
)
POOL_RMSD_ADD_STRUCTURE
(in
rosetta.basic
)
PairEPotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
parse_seeds()
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
POOL_RMSD_ADD_STRUCTURE
(in
rosetta.basic._basic_
)
PairFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_sequence()
(in
rosetta.core.pose._core_pose_
)
POOL_RMSD_ADD_STRUCTURE
(in
ProfTag
)
PairFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_startfrom_file()
(in
StartFrom
)
POOL_RMSD_EVALUATE
(in
rosetta.basic
)
PairFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_state()
(in
RotamerDumpMover
)
POOL_RMSD_EVALUATE
(in
rosetta.basic._basic_
)
PairFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_state()
(in
AbrelaxMover
)
POOL_RMSD_EVALUATE
(in
ProfTag
)
PairFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_state()
(in
ClassicAbinitio
)
POOL_RMSD_MASTER_EVALUATE
(in
rosetta.basic
)
PairFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_state()
(in
ConstraintFragmentSampler
)
POOL_RMSD_MASTER_EVALUATE
(in
rosetta.basic._basic_
)
Pairing
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
parse_state()
(in
DomainAssembly
)
POOL_RMSD_MASTER_EVALUATE
(in
ProfTag
)
pairing()
(in
PairingStatEntry
)
parse_state()
(in
DoubleLayerKinematicAbinitio
)
Pool_RMSDAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairingAP
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
parse_state()
(in
FoldConstraints
)
Pool_RMSDCAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairingCAP
(in
rosetta.core.scoring.dssp._core_scoring_dssp_
)
parse_state()
(in
FragmentSampler
)
pool_size()
(in
HierarchicalLevel
)
PairingLibrary
(in
rosetta.protocols.jumping._protocols_jumping_
)
parse_state()
(in
JumpingFoldConstraintsWrapper
)
PoolData
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairingLibraryAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
parse_state()
(in
KinematicAbinitio
)
PoolDataAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
PairingLibraryCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
parse_state()
(in
KinematicTaskControl
)
PoolDataCAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
pairings()
(in
Templates
)
parse_state()
(in
LoopJumpFoldCst
)
PoolEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
pairings_size()
(in
MembraneJump
)
parse_state()
(in
MembraneAbinitio
)
PoolEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
PairingStatEntry
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_state()
(in
Protocol
)
PoolEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
PairingStatEntryAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_state()
(in
ResolutionSwitcher
)
pop()
(in
TokenSet
)
PairingStatEntryCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_state()
(in
AbscriptLoopCloserCM
)
pop()
(in
TopEntitySet
)
PairingStatistics
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_state()
(in
AbscriptMover
)
pop_all()
(in
WUQueue
)
PairingStatisticsAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_state()
(in
AbscriptStageMover
)
pop_back()
(in
Pool_RMSD
)
PairingStatisticsCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_state()
(in
ConstraintPreparer
)
pop_back()
(in
MetaPoseEvaluator
)
PairingTemplate
(in
rosetta.protocols.jumping._protocols_jumping_
)
parse_state()
(in
FragmentCM
)
pop_back_CA_xyz()
(in
DecoySetEvaluation
)
PairingTemplateAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
parse_state()
(in
FragmentJumpCM
)
pop_front()
(in
WUQueue
)
PairingTemplateCAP
(in
rosetta.protocols.jumping._protocols_jumping_
)
parse_state()
(in
RigidChunkCM
)
pop_mutation()
(in
Mutant
)
pairs()
(in
PairScoringScheme
)
parse_state()
(in
StagePreparer
)
pop_next()
(in
WorkUnitQueue
)
PairScoringScheme
(in
rosetta.core.sequence._core_sequence_
)
parse_state()
(in
StructPerturberCM
)
pop_next()
(in
WorkUnitQueue_Swapped
)
PairScoringSchemeAP
(in
rosetta.core.sequence._core_sequence_
)
parse_state()
(in
InterfaceAnalyzerMover
)
pop_next_message_for_node_of_type()
(in
SimulateMPIData
)
PairScoringSchemeCAP
(in
rosetta.core.sequence._core_sequence_
)
parse_state()
(in
LoopAnalyzerMover
)
pop_next_message_of_type()
(in
SimulateMPIData
)
PalesEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_state()
(in
PackStatMover
)
pop_passport()
(in
Conformation
)
PalesEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_state()
(in
AnchoredDesignMover
)
pop_passport()
(in
SymmetricConformation
)
PalesEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_state()
(in
AnchoredPerturbMover
)
populate_all_cdrs()
(in
Antibody
)
PalesEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_state()
(in
AnchoredRefineMover
)
population()
(in
GeneticAlgorithm
)
PalesEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_state()
(in
AntibodyModelerProtocol
)
population()
(in
GeneticAlgorithmBase
)
PalesEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_state()
(in
CDRsMinPackMin
)
pore_radius()
(in
LayerDesignOperation
)
pAP
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
parse_state()
(in
CloseOneCDRLoop
)
pore_radius()
(in
SelectResiduesByLayer
)
parallel()
(in
GreedyOptMutationMover
)
parse_state()
(in
GraftCDRLoopsProtocol
)
pos()
(in
GrowLeft
)
parallel()
(in
ParetoOptMutationMover
)
parse_state()
(in
GraftOneCDRLoop
)
pos()
(in
GrowRight
)
parallel()
(in
PointMutationCalculator
)
parse_state()
(in
GraftedStemOptimizer
)
Pos1()
(in
Pairing
)
parallel()
(in
MatDesGreedyOptMutationMover
)
parse_state()
(in
H3CterInsert
)
pos1()
(in
JumpClaim
)
parallel()
(in
MatDesPointMutationCalculator
)
parse_state()
(in
H3PerturbCCD
)
Pos2()
(in
Pairing
)
parallel_base_test()
(in
rosetta.protocols.motifs._protocols_motifs_
)
parse_state()
(in
H3RefineCCD
)
pos2()
(in
JumpClaim
)
ParallelBetaPairingPreferenceFilter
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
parse_state()
(in
LHRepulsiveRamp
)
pos_in_history_queue()
(in
recent_history_queue
)
ParallelBetaPairingPreferenceFilterAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
parse_state()
(in
ModelCDRH3
)
pos_mod()
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
ParallelBetaPairingPreferenceFilterCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
parse_state()
(in
RefineBetaBarrel
)
pose
(in
rosetta.core
)
ParallelBetaPairingPreferenceFilterCreator
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
parse_state()
(in
RefineOneCDRLoop
)
Pose
(in
rosetta.core.pose._core_pose_
)
ParallelBetaPairingPreferenceFilterCreatorAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
parse_state()
(in
RefineOneCDRLoopCentroid
)
pose()
(in
EnergyEval
)
ParallelBetaPairingPreferenceFilterCreatorCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
parse_state()
(in
CDRDihedralConstraintMover
)
pose()
(in
OnTheFlyInteractionGraph
)
ParallelTempering
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_state()
(in
ParatopeEpitopeSiteConstraintMover
)
pose()
(in
SimpleInteractionGraph
)
ParallelTemperingAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_state()
(in
ParatopeSiteConstraintMover
)
pose()
(in
SymmOnTheFlyInteractionGraph
)
ParallelTemperingCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_state()
(in
AntibodyDesignMover
)
pose()
(in
CacheablePoseRawPtr
)
ParallelTemperingCreator
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_state()
(in
AntibodyDesignProtocol
)
pose()
(in
PackDaemon
)
ParallelTemperingCreatorAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_state()
(in
MutateFrameworkForCluster
)
pose()
(in
PlaidFingerprint
)
ParallelTemperingCreatorCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_state()
(in
AntibodyModeler
)
pose()
(in
Rose
)
param()
(in
HolesParamsRes
)
parse_state()
(in
CDRH3Modeler
)
pose()
(in
RelativePoseFilter
)
param1()
(in
BranchAngleOptimizer
)
parse_state()
(in
CloseOneMover
)
pose()
(in
AlignChainMover
)
param2()
(in
BranchAngleOptimizer
)
parse_state()
(in
GraftMover
)
pose()
(in
RNA_ChainClosureChecker
)
param_cache()
(in
EnzdesCstCache
)
parse_state()
(in
GraftOneMover
)
pose()
(in
O2PrimePacker
)
param_index()
(in
EnzCstTemplateRes
)
parse_state()
(in
LoopRlxMover
)
pose()
(in
MultiPhosphateSampler
)
parameter_set4final()
(in
TMalign
)
parse_state()
(in
BackrubMover
)
pose()
(in
ResidueAlternativeSet
)
parameter_set4scale()
(in
TMalign
)
parse_state()
(in
BackrubProtocol
)
pose()
(in
SampleApplier
)
parameter_set4search()
(in
TMalign
)
parse_state()
(in
BackrubSidechainMover
)
pose1()
(in
MotifHit
)
Parameters
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
parse_state()
(in
CanonicalSamplingMover
)
pose1()
(in
ResPairMotifQuery
)
parameters
(in
rosetta.protocols.helical_bundle
)
parse_state()
(in
FixedTemperatureController
)
pose1_has_most_CBs()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
parameters()
(in
ParametersSet
)
parse_state()
(in
MetricRecorder
)
pose1ptr()
(in
MotifHit
)
parameters_for_restype()
(in
IdealParametersDatabase
)
parse_state()
(in
MetropolisHastingsMover
)
pose2()
(in
MotifHit
)
parameters_index()
(in
PerturbBundleHelix
)
parse_state()
(in
ParallelTempering
)
pose2()
(in
ResPairMotifQuery
)
parameters_set()
(in
Conformation
)
parse_state()
(in
ProgressBarObserver
)
pose2pdb()
(in
PDBInfo
)
parameters_set()
(in
SymmetricConformation
)
parse_state()
(in
SidechainMetropolisHastingsMover
)
pose2ptr()
(in
MotifHit
)
parameters_set()
(in
ProtectedConformation
)
parse_state()
(in
SimulatedTempering
)
pose_at_origin()
(in
RigidBodyStepWiseSampler
)
parameters_set_index()
(in
PerturbBundleHelix
)
parse_state()
(in
TemperatureController
)
POSE_BEFORE_CAVITIES_ADDED
(in
Enum
)
ParametersAP
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
parse_state()
(in
TemperingBase
)
POSE_BEFORE_CAVITIES_ADDED
(in
CacheableDataType
)
ParametersCAP
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
parse_state()
(in
ThermodynamicMover
)
pose_charge()
(in
rosetta.protocols.antibody._protocols_antibody_
)
ParametersSet
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
parse_state()
(in
ThermodynamicObserver
)
pose_coords_are_same()
(in
GreedyOptMutationMover
)
ParametersSetAP
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
parse_state()
(in
TrialCounterObserver
)
pose_coords_are_same()
(in
MatDesGreedyOptMutationMover
)
ParametersSetCAP
(in
rosetta.core.conformation.parametric._core_conformation_parametric_
)
parse_state()
(in
AssignToClustersMover
)
POSE_COPY
(in
rosetta.basic
)
parametric
(in
rosetta.core.conformation
)
parse_state()
(in
ClusterBase
)
POSE_COPY
(in
rosetta.basic._basic_
)
params_database_tag()
(in
HBondOptions
)
parse_state()
(in
ClusterPhilStyle
)
POSE_COPY
(in
ProfTag
)
paratope_charge()
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
ClusterPhilStyle_Loop
)
pose_energies_to_json()
(in
rosetta.protocols.rpc._protocols_rpc_
)
paratope_sasa()
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
ClusterPhilStyle_PoseReporter
)
pose_from_atom_tree_diff()
(in
rosetta.core.import_pose.atom_tree_diffs._core_import_pose_atom_tree_diffs_
)
ParatopeEpitopeSiteConstraintMover
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
EnsembleConstraints
)
pose_from_job()
(in
GenericJobInputter
)
ParatopeEpitopeSiteConstraintMoverAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
EnsembleConstraints_Simple
)
pose_from_job()
(in
ThreadingJobInputter
)
ParatopeEpitopeSiteConstraintMoverCAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
GatherPosesMover
)
pose_from_job()
(in
DatabaseJobInputter
)
ParatopeEpitopeSiteConstraintMoverCreator
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
CoarseRNA_LoopCloser
)
pose_from_job()
(in
AtomTreeDiffJobInputter
)
ParatopeEpitopeSiteConstraintMoverCreatorAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
ExtraThreadingMover
)
pose_from_job()
(in
BatchJobInputter
)
ParatopeEpitopeSiteConstraintMoverCreatorCAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
LoopRelaxMover
)
pose_from_job()
(in
JD2ResourceManagerJobInputter
)
ParatopeMetric_T_double_T
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
LoopRelaxThreadingMover
)
pose_from_job()
(in
JobInputter
)
ParatopeMetric_T_double_TAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
MultiThreadingMover
)
pose_from_job()
(in
LazySilentFileJobInputter
)
ParatopeMetric_T_double_TCAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
PartialThreadingMover
)
pose_from_job()
(in
PDBJobInputter
)
ParatopeMetric_T_long_int_T
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
RecoverSideChainsMover
)
pose_from_job()
(in
PoseInputStreamJobInputter
)
ParatopeMetric_T_long_int_TAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
StealLigandMover
)
pose_from_job()
(in
ScreeningJobInputter
)
ParatopeMetric_T_long_int_TCAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_state()
(in
StealSideChainsMover
)
pose_from_job()
(in
SilentFileJobInputter
)
ParatopeSiteConstraintMover
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
ThreadingMover
)
pose_from_job()
(in
MakeRotLibJobInputter
)
ParatopeSiteConstraintMoverAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
ContactMap
)
pose_from_job()
(in
ParserJobInputter
)
ParatopeSiteConstraintMoverCAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
FitBfactorsMover
)
pose_from_pdb()
(in
rosetta.core.import_pose._core_import_pose_
)
ParatopeSiteConstraintMoverCreator
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
LoadDensityMapMover
)
pose_from_pdb_stream()
(in
rosetta.core.import_pose._core_import_pose_
)
ParatopeSiteConstraintMoverCreatorAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
RecomputeDensityMapMover
)
pose_from_pdbstring()
(in
rosetta.core.import_pose._core_import_pose_
)
ParatopeSiteConstraintMoverCreatorCAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
parse_state()
(in
SetCrystWeightMover
)
pose_from_pose()
(in
rosetta.core.io.pdb._core_io_pdb_
)
parent()
(in
Atom
)
parse_state()
(in
SetRefinementOptionsMover
)
pose_from_saccharide_sequence()
(in
rosetta.core.pose._core_pose_
)
parent()
(in
Atom_
)
parse_state()
(in
TagPoseWithRefinementStatsMover
)
pose_from_sequence()
(in
rosetta
)
parent()
(in
DOF_Node
)
parse_state()
(in
UpdateSolventMover
)
pose_has_nonzero_Bs()
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
parent()
(in
ClusteringTreeNode
)
parse_state()
(in
CreateAngleConstraint
)
pose_index()
(in
ResidueIndexDescription
)
parent()
(in
KDNode
)
parse_state()
(in
CreateDistanceConstraint
)
pose_input_stream()
(in
InputStreamWithResidueInfo
)
parent()
(in
PathName
)
parse_state()
(in
CreateTorsionConstraint
)
pose_list()
(in
StepWiseProteinMinimizer
)
parent_id()
(in
DOF_DataPoint
)
parse_state()
(in
DeclareBond
)
pose_list()
(in
StepWiseMinimizer
)
parent_node()
(in
InvrotTreeNodeBase
)
parse_state()
(in
PeptideStubMover
)
pose_list()
(in
StepWiseClusterer
)
ParetoOptMutationMover
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
parse_state()
(in
ddGMover
)
pose_list()
(in
ResidueAlternativeSet
)
ParetoOptMutationMoverAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
parse_state()
(in
GreedyOptMutationMover
)
pose_manipulation
(in
rosetta.protocols.toolbox
)
ParetoOptMutationMoverCAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
parse_state()
(in
ParetoOptMutationMover
)
pose_matches_user_tag()
(in
rosetta.protocols.jobdist._protocols_jobdist_
)
ParetoOptMutationMoverCreator
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
parse_state()
(in
DesignProteinBackboneAroundDNA
)
pose_max_nbr_radius()
(in
rosetta.core.pose._core_pose_
)
ParetoOptMutationMoverCreatorAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
parse_state()
(in
DnaInterfaceMinMover
)
pose_metric_calculators
(in
rosetta.protocols.toolbox
)
ParetoOptMutationMoverCreatorCAP
(in
rosetta.protocols.design_opt._protocols_design_opt_
)
parse_state()
(in
DnaInterfaceMultiStateDesign
)
pose_name()
(in
StructureRestrictor
)
parin_favorite_output()
(in
StepWiseRNA_ModelerOptions
)
parse_state()
(in
DnaInterfacePacker
)
pose_numb()
(in
EnzdesLoopInfo
)
parse()
(in
CtabParserBase
)
parse_state()
(in
SeparateDnaFromNonDna
)
pose_numbered()
(in
ResidueIndexDescription
)
parse()
(in
CtabV2000Parser
)
parse_state()
(in
ConformerSwitchMover
)
pose_passes_ss_length_check()
(in
TorsionFragmentMover
)
parse()
(in
CtabV3000Parser
)
parse_state()
(in
DockMCMCycle
)
pose_raw_unfolded_state_energymap()
(in
UnfoldedStatePotential
)
parse()
(in
SDFParser
)
parse_state()
(in
DockMCMProtocol
)
pose_ref()
(in
CombinePoseMover
)
parse()
(in
PDB_DReader
)
parse_state()
(in
DockMinMover
)
pose_reporters
(in
rosetta.protocols
)
parse()
(in
ArithmeticASTExpression
)
parse_state()
(in
DockSetupMover
)
pose_res_no()
(in
FabConstraint
)
parse()
(in
ArithmeticASTFactor
)
parse_state()
(in
DockingEnsemblePrepackProtocol
)
pose_residue_is_terminal()
(in
rosetta.core.pose._core_pose_
)
parse()
(in
ArithmeticASTFunction
)
parse_state()
(in
DockingHighRes
)
pose_resnum()
(in
MutationData
)
parse()
(in
ArithmeticASTRestExpression
)
parse_state()
(in
DockingHighResLegacy
)
pose_right()
(in
ConnectRight
)
parse()
(in
ArithmeticASTRestTerm
)
parse_state()
(in
DockingInitialPerturbation
)
POSE_SELECTION
(in
rosetta.protocols.stepwise.screener
)
parse()
(in
ArithmeticASTTerm
)
parse_state()
(in
DockingLowRes
)
POSE_SELECTION
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse()
(in
ArithmeticASTValue
)
parse_state()
(in
DockingLowResEnsemble
)
POSE_SELECTION
(in
StepWiseScreenerType
)
parse_adduct_string()
(in
rosetta.core.chemical._core_chemical_
)
parse_state()
(in
DockingPrepackProtocol
)
pose_selectors
(in
rosetta.protocols
)
parse_atom_pair_constraint()
(in
ConstraintIO
)
parse_state()
(in
DockingProtocol
)
pose_stream
(in
rosetta.core.import_pose
)
parse_atom_type_data()
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
parse_state()
(in
DockingSlideIntoContact
)
pose_tag()
(in
CombinePoseMover
)
parse_batch_description_tag_item()
(in
ReportToDB
)
parse_state()
(in
EllipsoidalRandomizationMover
)
pose_to_pack_data()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_batch_id_tag_item()
(in
ReportToDB
)
parse_state()
(in
FaDockingSlideIntoContact
)
pose_with_most_CBs()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
parse_batch_name_tag_item()
(in
ReportToDB
)
parse_state()
(in
InterfaceSidechainMinMover
)
PoseAP
(in
rosetta.core.pose._core_pose_
)
parse_bogus_res_tag()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_state()
(in
SidechainMinMover
)
PoseBalls
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
parse_bond_type_data()
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
parse_state()
(in
TemperedDocking
)
PoseBallsAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
parse_cache_size_tag_item()
(in
ReportToDB
)
parse_state()
(in
MPDockingMover
)
PoseBallsCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
parse_chain_endings()
(in
BinarySilentStruct
)
parse_state()
(in
MPDockingSetupMover
)
PoseBallsLite
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
parse_chi_and_bb()
(in
MinMover
)
parse_state()
(in
SaneDockingProtocol
)
PoseBallsLiteAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
parse_command_line()
(in
FragmentPicker
)
parse_state()
(in
AddAssemblyConstraints
)
PoseBallsLiteCAP
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
parse_coordinate_constraint()
(in
ConstraintIO
)
parse_state()
(in
AssembleLinkerMover
)
poseBfacts2multivec()
(in
BfactorMultifunc
)
parse_database_connection()
(in
rosetta.basic.database._basic_database_
)
parse_state()
(in
CombineChainsMover
)
PoseCAP
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
AppendResidueRotamerSet
)
parse_state()
(in
PostDockAssemblyScorer
)
PoseComment
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
AppendRotamer
)
parse_state()
(in
BfactorFittingMover
)
PoseCommentAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
AppendRotamerSet
)
parse_state()
(in
DensityMorphingMover
)
PoseCommentCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
DisallowIfNonnative
)
parse_state()
(in
ReportFSC
)
PoseCommentFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
ExtraChiCutoff
)
parse_state()
(in
ScaleMapIntensities
)
PoseCommentFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
ExtraRotamers
)
parse_state()
(in
SetupForDensityScoringMover
)
PoseCommentFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
ExtraRotamersGeneric
)
parse_state()
(in
ClientMover
)
PoseCommentsFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
IncludeCurrent
)
parse_state()
(in
CoMTrackerCM
)
PoseCommentsFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
InitializeExtraRotsFromCommandline
)
parse_state()
(in
EnvMover
)
PoseCommentsFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
InitializeFromCommandline
)
parse_state()
(in
ScriptCM
)
PoseCommentsFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
NoRepackDisulfides
)
parse_state()
(in
MultipleDomainMover
)
PoseCommentsFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
OperateOnCertainResidues
)
parse_state()
(in
RNA_DeNovoProtocol
)
PoseCommentsFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
OperateOnResidueSubset
)
parse_state()
(in
RNA_FragmentMover
)
PoseCondition
(in
rosetta.protocols.moves._protocols_moves_
)
parse_def()
(in
OptCysHG
)
parse_state()
(in
RNA_LoopCloser
)
PoseConditionAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_def()
(in
OptH
)
parse_state()
(in
RNA_Minimizer
)
PoseConditionCAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_def()
(in
PreserveCBeta
)
parse_state()
(in
RNA_Relaxer
)
PoseConformationFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
PreventRepacking
)
parse_state()
(in
ReportToDB
)
PoseConformationFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
ReadResfile
)
parse_state()
(in
TrajectoryReportToDB
)
PoseConformationFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
ReadResfileAndObeyLengthEvents
)
parse_state()
(in
SetupForFibrilMover
)
PoseConformationFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
ReplicateTask
)
parse_state()
(in
BluePrintBDR
)
PoseConformationFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
RestrictAbsentCanonicalAAS
)
parse_state()
(in
CircularPermutation
)
PoseConformationFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_def()
(in
RestrictResidueToRepacking
)
parse_state()
(in
MatchResiduesMover
)
poseCoord
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
parse_def()
(in
RestrictToRepacking
)
parse_state()
(in
SheetConstraintsRCG
)
poseCoordAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
parse_def()
(in
RestrictYSDesign
)
parse_state()
(in
SetAACompositionPotential
)
poseCoordCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
parse_def()
(in
RotamerExplosion
)
parse_state()
(in
SetSecStructEnergies
)
PoseCoordPickMode
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
SetRotamerCouplings
)
parse_state()
(in
FlexPacker
)
PoseCoordPickMode_ALL
(in
rosetta.core.pose
)
parse_def()
(in
SetRotamerLinks
)
parse_state()
(in
FlexPepDockingAbInitio
)
PoseCoordPickMode_ALL
(in
PoseCoordPickMode
)
parse_def()
(in
TaskOperation
)
parse_state()
(in
FlexPepDockingLowRes
)
PoseCoordPickMode_ALL
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
RotamerDumpMover
)
parse_state()
(in
FlexPepDockingProtocol
)
PoseCoordPickMode_BB
(in
rosetta.core.pose
)
parse_def()
(in
AbrelaxMover
)
parse_state()
(in
FloppyTailMover
)
PoseCoordPickMode_BB
(in
PoseCoordPickMode
)
parse_def()
(in
ClassicAbinitio
)
parse_state()
(in
FlxbbDesign
)
PoseCoordPickMode_BB
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
ConstraintFragmentSampler
)
parse_state()
(in
FlxbbDesignPack
)
PoseCoordPickMode_BNP
(in
rosetta.core.pose
)
parse_def()
(in
DomainAssembly
)
parse_state()
(in
InterlockAroma
)
PoseCoordPickMode_BNP
(in
PoseCoordPickMode
)
parse_def()
(in
DoubleLayerKinematicAbinitio
)
parse_state()
(in
BDR
)
PoseCoordPickMode_BNP
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
FoldConstraints
)
parse_state()
(in
VarLengthBuild
)
PoseCoordPickMode_CA
(in
rosetta.core.pose
)
parse_def()
(in
FragmentSampler
)
parse_state()
(in
RemodelConstraintGenerator
)
PoseCoordPickMode_CA
(in
PoseCoordPickMode
)
parse_def()
(in
JumpingFoldConstraintsWrapper
)
parse_state()
(in
NonlocalFrags
)
PoseCoordPickMode_CA
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
KinematicAbinitio
)
parse_state()
(in
TorsionFragmentMover
)
PoseCoordPickMode_CB
(in
rosetta.core.pose
)
parse_def()
(in
KinematicTaskControl
)
parse_state()
(in
GeneralizedKIC
)
PoseCoordPickMode_CB
(in
PoseCoordPickMode
)
parse_def()
(in
LoopJumpFoldCst
)
parse_state()
(in
AnchoredGraftMover
)
PoseCoordPickMode_CB
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
MembraneAbinitio
)
parse_state()
(in
CCDEndsGraftMover
)
PoseCoordPickMode_CB_else_CA
(in
rosetta.core.pose
)
parse_def()
(in
Protocol
)
parse_state()
(in
GraftMoverBase
)
PoseCoordPickMode_CB_else_CA
(in
PoseCoordPickMode
)
parse_def()
(in
ResolutionSwitcher
)
parse_state()
(in
DeleteRegionMover
)
PoseCoordPickMode_CB_else_CA
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
AbscriptLoopCloserCM
)
parse_state()
(in
InsertPoseIntoPoseMover
)
PoseCoordPickMode_CBorCA
(in
rosetta.core.pose
)
parse_def()
(in
AbscriptMover
)
parse_state()
(in
KeepRegionMover
)
PoseCoordPickMode_CBorCA
(in
PoseCoordPickMode
)
parse_def()
(in
AbscriptStageMover
)
parse_state()
(in
ReplaceRegionMover
)
PoseCoordPickMode_CBorCA
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
ConstraintPreparer
)
parse_state()
(in
BackboneGridSampler
)
PoseCoordPickMode_HVY
(in
rosetta.core.pose
)
parse_def()
(in
FragmentCM
)
parse_state()
(in
BundleGridSampler
)
PoseCoordPickMode_HVY
(in
PoseCoordPickMode
)
parse_def()
(in
FragmentJumpCM
)
parse_state()
(in
FitSimpleHelix
)
PoseCoordPickMode_HVY
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
RigidChunkCM
)
parse_state()
(in
MakeBundle
)
PoseCoordPickMode_HVY_IF_NP
(in
rosetta.core.pose
)
parse_def()
(in
StagePreparer
)
parse_state()
(in
MakeBundleHelix
)
PoseCoordPickMode_HVY_IF_NP
(in
PoseCoordPickMode
)
parse_def()
(in
StructPerturberCM
)
parse_state()
(in
PerturbBundle
)
PoseCoordPickMode_HVY_IF_NP
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
InterfaceAnalyzerMover
)
parse_state()
(in
PerturbBundleHelix
)
PoseCoordPickMode_N_C_O
(in
rosetta.core.pose
)
parse_def()
(in
LoopAnalyzerMover
)
parse_state()
(in
BackboneTorsionPerturbation
)
PoseCoordPickMode_N_C_O
(in
PoseCoordPickMode
)
parse_def()
(in
PackStatMover
)
parse_state()
(in
BackboneTorsionSampler
)
PoseCoordPickMode_N_C_O
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
PeptideDeriverFilter
)
parse_state()
(in
CartesianHybridize
)
PoseCoordPickMode_N_CA_C
(in
rosetta.core.pose
)
parse_def()
(in
AnchoredDesignMover
)
parse_state()
(in
CartesianSampler
)
PoseCoordPickMode_N_CA_C
(in
PoseCoordPickMode
)
parse_def()
(in
AnchoredPerturbMover
)
parse_state()
(in
ChunkTrialMover
)
PoseCoordPickMode_N_CA_C
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
AnchoredRefineMover
)
parse_state()
(in
DomainAssembly
)
PoseCoordPickMode_N_CA_C_CB
(in
rosetta.core.pose
)
parse_def()
(in
AntibodyModelerProtocol
)
parse_state()
(in
FoldTreeHybridize
)
PoseCoordPickMode_N_CA_C_CB
(in
PoseCoordPickMode
)
parse_def()
(in
CDRsMinPackMin
)
parse_state()
(in
HybridizeProtocol
)
PoseCoordPickMode_N_CA_C_CB
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
CloseOneCDRLoop
)
parse_state()
(in
InsertChunkMover
)
PoseCoordPickMode_NBR
(in
rosetta.core.pose
)
parse_def()
(in
GraftCDRLoopsProtocol
)
parse_state()
(in
MRMover
)
PoseCoordPickMode_NBR
(in
PoseCoordPickMode
)
parse_def()
(in
GraftOneCDRLoop
)
parse_state()
(in
WeightedFragmentSmoothTrialMover
)
PoseCoordPickMode_NBR
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
GraftedStemOptimizer
)
parse_state()
(in
WeightedFragmentTrialMover
)
PoseCoordPickMode_NUL
(in
rosetta.core.pose
)
parse_def()
(in
H3CterInsert
)
parse_state()
(in
IdealizeMover
)
PoseCoordPickMode_NUL
(in
PoseCoordPickMode
)
parse_def()
(in
H3PerturbCCD
)
parse_state()
(in
BalancedKicMover
)
PoseCoordPickMode_NUL
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
H3RefineCCD
)
parse_state()
(in
KicMover
)
PoseEvaluator
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
parse_def()
(in
LHRepulsiveRamp
)
parse_state()
(in
AddHydrogen
)
PoseEvaluatorAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
parse_def()
(in
ModelCDRH3
)
parse_state()
(in
AddHydrogens
)
PoseEvaluatorCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
parse_def()
(in
RefineBetaBarrel
)
parse_state()
(in
CompoundTranslate
)
PoseFromPDBLoader
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
RefineOneCDRLoop
)
parse_state()
(in
ComputeLigandRDF
)
PoseFromPDBLoaderAP
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
RefineOneCDRLoopCentroid
)
parse_state()
(in
FinalMinimizer
)
PoseFromPDBLoaderCAP
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
CDRDihedralConstraintMover
)
parse_state()
(in
GrowLigand
)
PoseFromPDBLoaderCreator
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
ParatopeEpitopeSiteConstraintMover
)
parse_state()
(in
HighResDocker
)
PoseFromPDBLoaderCreatorAP
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
ParatopeSiteConstraintMover
)
parse_state()
(in
InterfaceScoreCalculator
)
PoseFromPDBLoaderCreatorCAP
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
AntibodyDesignMover
)
parse_state()
(in
LigandDesign
)
PoseInfoFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
AntibodyDesignProtocol
)
parse_state()
(in
MinimizeBackbone
)
PoseInfoFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
MutateFrameworkForCluster
)
parse_state()
(in
MinimizeLigand
)
PoseInfoFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
AddCDRProfileSetsOperation
)
parse_state()
(in
RandomConformerMover
)
PoseInfoFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
AddCDRProfilesOperation
)
parse_state()
(in
RandomConformers
)
PoseInfoFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
DisableAntibodyRegionOperation
)
parse_state()
(in
RigidSearchMover
)
PoseInfoFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
DisableCDRsOperation
)
parse_state()
(in
Rotate
)
PoseInputStream
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
parse_def()
(in
RestrictToCDRsAndNeighbors
)
parse_state()
(in
Rotates
)
PoseInputStreamAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
parse_def()
(in
AntibodyModeler
)
parse_state()
(in
SlideTogether
)
PoseInputStreamCAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
parse_def()
(in
CDRH3Modeler
)
parse_state()
(in
StartFrom
)
PoseInputStreamJobInputter
(in
rosetta.protocols.jd2._protocols_jd2_
)
parse_def()
(in
CloseOneMover
)
parse_state()
(in
TetherLigand
)
PoseInputStreamJobInputterAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
parse_def()
(in
GraftMover
)
parse_state()
(in
Transform
)
PoseInputStreamJobInputterCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
parse_def()
(in
GraftOneMover
)
parse_state()
(in
Translate
)
PoseInputStreamJobInputterCreator
(in
rosetta.protocols.jd2._protocols_jd2_
)
parse_def()
(in
LoopRlxMover
)
parse_state()
(in
UnconstrainedTorsionsMover
)
PoseInputStreamJobInputterCreatorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
parse_def()
(in
BackrubMover
)
parse_state()
(in
WriteLigandMolFile
)
PoseInputStreamJobInputterCreatorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
parse_def()
(in
BackrubProtocol
)
parse_state()
(in
LoopBuildMover
)
PoseInserter
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_def()
(in
BackrubSidechainMover
)
parse_state()
(in
LoopmodelWrapper
)
PoseInserterAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_def()
(in
CanonicalSamplingMover
)
parse_state()
(in
LoopBuilder
)
PoseInserterCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_def()
(in
FixedTemperatureController
)
parse_state()
(in
LoopModeler
)
PoseMatchOutputWriter
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_def()
(in
MetricRecorder
)
parse_state()
(in
LoopMover
)
PoseMatchOutputWriterAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_def()
(in
MetropolisHastingsMover
)
parse_state()
(in
LoopProtocol
)
PoseMatchOutputWriterCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_def()
(in
ParallelTempering
)
parse_state()
(in
MinimizationRefiner
)
PoseMetricCalculator
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
parse_def()
(in
ProgressBarObserver
)
parse_state()
(in
RepackingRefiner
)
PoseMetricCalculatorAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
parse_def()
(in
SidechainMetropolisHastingsMover
)
parse_state()
(in
RotamerTrialsRefiner
)
PoseMetricCalculatorCAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
parse_def()
(in
SimulatedTempering
)
parse_state()
(in
LegacyKicSampler
)
PoseMetricContainer
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
parse_def()
(in
TemperatureController
)
parse_state()
(in
AcceptanceCheck
)
PoseMetricContainerAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
parse_def()
(in
TemperingBase
)
parse_state()
(in
LoopFilter
)
PoseMetricContainerCAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
parse_def()
(in
ThermodynamicMover
)
parse_state()
(in
LoopMoverGroup
)
PoseNumberedLoopFileReader
(in
rosetta.protocols.loops._protocols_loops_
)
parse_def()
(in
ThermodynamicObserver
)
parse_state()
(in
PrepareForCentroid
)
PoseNumberedLoopFileReaderAP
(in
rosetta.protocols.loops._protocols_loops_
)
parse_def()
(in
TrialCounterObserver
)
parse_state()
(in
PrepareForFullatom
)
PoseNumberedLoopFileReaderCAP
(in
rosetta.protocols.loops._protocols_loops_
)
parse_def()
(in
AssignToClustersMover
)
parse_state()
(in
FastGapMover
)
poseOPs_from_pdbs()
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
ClusterBase
)
parse_state()
(in
LoopHashDiversifier
)
PosePackData
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_def()
(in
ClusterPhilStyle
)
parse_state()
(in
LoopHashLibrary
)
PosePackDataAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_def()
(in
ClusterPhilStyle_Loop
)
parse_state()
(in
LoopHashMoverWrapper
)
PosePackDataCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_def()
(in
ClusterPhilStyle_PoseReporter
)
parse_state()
(in
LoopHashRelaxProtocol
)
PosePropertyReporter
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
EnsembleConstraints
)
parse_state()
(in
Mover_LoopHashRefine
)
PosePropertyReporterAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
EnsembleConstraints_Simple
)
parse_state()
(in
FoldTreeFromLoops
)
PosePropertyReporterCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
GatherPosesMover
)
parse_state()
(in
CCDLoopClosureMover
)
PosePropertyReporterCreator
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
CoarseRNA_LoopCloser
)
parse_state()
(in
FASelectSlidingWindowLoopClosure
)
PosePropertyReporterCreatorAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
ExtraThreadingMover
)
parse_state()
(in
SlidingWindowLoopClosure
)
PosePropertyReporterCreatorCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
LoopRelaxMover
)
parse_state()
(in
WidthFirstSlidingWindowLoopClosure
)
PosePropertyReporterFactory
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
LoopRelaxThreadingMover
)
parse_state()
(in
KinematicMover
)
PosePropertyReporterFactoryAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
MultiThreadingMover
)
parse_state()
(in
KinematicWrapper
)
PosePropertyReporterFactoryCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
PartialThreadingMover
)
parse_state()
(in
LoopCM
)
PosePyObserver
(in
rosetta.core.pose._core_pose_
)
parse_def()
(in
RecoverSideChainsMover
)
parse_state()
(in
LoopRefineInnerCycle
)
poses_from_cmd_line()
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
parse_def()
(in
StealLigandMover
)
parse_state()
(in
LoopRefineInnerCycleContainer
)
poses_from_pdbs()
(in
rosetta.core.import_pose._core_import_pose_
)
parse_def()
(in
StealSideChainsMover
)
parse_state()
(in
RepackTrial
)
PoseSelectionScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_def()
(in
ThreadingMover
)
parse_state()
(in
ShearMinCCDTrial
)
PoseSelectionScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_def()
(in
ContactMap
)
parse_state()
(in
SmallMinCCDTrial
)
PoseSelectionScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_def()
(in
FitBfactorsMover
)
parse_state()
(in
MakeRotLibMover
)
PoseSelector
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
LoadDensityMapMover
)
parse_state()
(in
MatcherMover
)
PoseSelectorAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
RecomputeDensityMapMover
)
parse_state()
(in
ExtractSubposeMover
)
PoseSelectorCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
SetCrystWeightMover
)
parse_state()
(in
MatDesGreedyOptMutationMover
)
PoseSelectorCreator
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
SetRefinementOptionsMover
)
parse_state()
(in
SchemePlaceMotifsMover
)
PoseSelectorCreatorAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
TagPoseWithRefinementStatsMover
)
parse_state()
(in
SymDofMover
)
PoseSelectorCreatorCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
UpdateSolventMover
)
parse_state()
(in
CartesianMD
)
PoseSelectorFactory
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
CreateAngleConstraint
)
parse_state()
(in
MDBase
)
PoseSelectorFactoryAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
CreateDistanceConstraint
)
parse_state()
(in
MedalExchangeMover
)
PoseSelectorFactoryCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
CreateTorsionConstraint
)
parse_state()
(in
MedalMover
)
PoseSelectorFlags
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_def()
(in
DeclareBond
)
parse_state()
(in
AddMPLigandMover
)
poseSHT()
(in
ElectronDensity
)
parse_def()
(in
PeptideStubMover
)
parse_state()
(in
AddMembraneMover
)
position()
(in
MolFileIOAtom
)
parse_def()
(in
ddGMover
)
parse_state()
(in
FlipMover
)
position()
(in
LocalPosition
)
parse_def()
(in
ExposedHydrophobicsFilter
)
parse_state()
(in
MembranePositionFromTopologyMover
)
position()
(in
Atom
)
parse_def()
(in
GreedyOptMutationMover
)
parse_state()
(in
RandomPositionRotationMover
)
position()
(in
Atom_
)
parse_def()
(in
ParetoOptMutationMover
)
parse_state()
(in
RandomPositionTranslationMover
)
position()
(in
Xfrag
)
parse_def()
(in
DesignProteinBackboneAroundDNA
)
parse_state()
(in
RotationMover
)
position()
(in
RNA_Datum
)
parse_def()
(in
DnaInterfaceMinMover
)
parse_state()
(in
SetMembraneCenterMover
)
position()
(in
RNA_Reactivity
)
parse_def()
(in
DnaInterfaceMultiStateDesign
)
parse_state()
(in
SetMembraneNormalMover
)
position()
(in
PNatAAOptEPositionData
)
parse_def()
(in
DnaInterfacePacker
)
parse_state()
(in
SetMembranePositionMover
)
position_ala_ddG()
(in
RestrictConservedLowDdgOperation
)
parse_def()
(in
RestrictDesignToProteinDNAInterface
)
parse_state()
(in
TransformIntoMembraneMover
)
POSITION_CONSERVED_RESIDUES
(in
Enum
)
parse_def()
(in
SeparateDnaFromNonDna
)
parse_state()
(in
TranslationMover
)
POSITION_CONSERVED_RESIDUES
(in
CacheableDataType
)
parse_def()
(in
WatsonCrickRotamerCouplings
)
parse_state()
(in
TranslationRotationMover
)
position_data_begin()
(in
OptEData
)
parse_def()
(in
ConformerSwitchMover
)
parse_state()
(in
SymmetricAddMembraneMover
)
position_data_end()
(in
OptEData
)
parse_def()
(in
DockMCMCycle
)
parse_state()
(in
VisualizeEmbeddingMover
)
position_index()
(in
VallResidue
)
parse_def()
(in
DockMCMProtocol
)
parse_state()
(in
VisualizeMembraneMover
)
position_index()
(in
VallResidue
)
parse_def()
(in
DockMinMover
)
parse_state()
(in
ZincHeterodimerMover
)
position_stub()
(in
PlaceOnLoop
)
parse_def()
(in
DockSetupMover
)
parse_state()
(in
MotifGraftMover
)
position_untouchable()
(in
RestrictConservedLowDdgOperation
)
parse_def()
(in
DockingEnsemblePrepackProtocol
)
parse_state()
(in
MotifDnaPacker
)
position_vector_setup()
(in
LigandMotifSearch
)
parse_def()
(in
DockingHighRes
)
parse_state()
(in
CompositionMover
)
position_vector_setup()
(in
MotifSearch
)
parse_def()
(in
DockingHighResFilter
)
parse_state()
(in
CycleMover
)
PositionConservedResiduesStore
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
parse_def()
(in
DockingHighResLegacy
)
parse_state()
(in
CyclicMover
)
PositionConservedResiduesStoreAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
parse_def()
(in
DockingInitialPerturbation
)
parse_state()
(in
DsspMover
)
PositionConservedResiduesStoreCAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
parse_def()
(in
DockingLowRes
)
parse_state()
(in
FilterMover
)
positions()
(in
DnaChains
)
parse_def()
(in
DockingLowResEnsemble
)
parse_state()
(in
FilterReporterMover
)
positions()
(in
BuildManager
)
parse_def()
(in
DockingLowResFilter
)
parse_state()
(in
IfMover
)
positions_in_secstruct()
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
DockingPrepackProtocol
)
parse_state()
(in
IteratedConvergenceMover
)
positions_incompatible_with_task()
(in
rosetta.protocols.backrub._protocols_backrub_
)
parse_def()
(in
DockingProtocol
)
parse_state()
(in
JumpOutMover
)
PositionSpecificRandomizer
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
parse_def()
(in
DockingSlideIntoContact
)
parse_state()
(in
MCShowMover
)
PositionSpecificRandomizerAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
parse_def()
(in
EllipsoidalRandomizationMover
)
parse_state()
(in
MonteCarloUtil
)
PositionSpecificRandomizerCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
parse_def()
(in
FaDockingSlideIntoContact
)
parse_state()
(in
MoveMapMover
)
PositionType
(in
rosetta.protocols.dna._protocols_dna_
)
parse_def()
(in
InterfaceSidechainMinMover
)
parse_state()
(in
Mover
)
PositionTypeAP
(in
rosetta.protocols.dna._protocols_dna_
)
parse_def()
(in
SidechainMinMover
)
parse_state()
(in
MoverApplyingMover
)
PositionTypeCAP
(in
rosetta.protocols.dna._protocols_dna_
)
parse_def()
(in
TemperedDocking
)
parse_state()
(in
MoverContainer
)
positive_pow()
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
parse_def()
(in
MPDockingMover
)
parse_state()
(in
MoverForPoseList
)
possible_root()
(in
FoldTree
)
parse_def()
(in
MPDockingSetupMover
)
parse_state()
(in
NullMover
)
possible_root()
(in
rosetta.protocols.farna._protocols_farna_
)
parse_def()
(in
SaneDockingProtocol
)
parse_state()
(in
PDBDumpMover
)
PossibleAtomTypesForAtom
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
parse_def()
(in
AddAssemblyConstraints
)
parse_state()
(in
ProfilerMover
)
PossibleAtomTypesForAtomAP
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
parse_def()
(in
AssembleLinkerMover
)
parse_state()
(in
PyMolMover
)
PossibleAtomTypesForAtomCAP
(in
rosetta.core.chemical.gasteiger._core_chemical_gasteiger_
)
parse_def()
(in
CombineChainsMover
)
parse_state()
(in
RampingMover
)
possibly_canonical()
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
parse_def()
(in
PostDockAssemblyScorer
)
parse_state()
(in
RandomMover
)
possibly_canonical_strict()
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
parse_def()
(in
BfactorFittingMover
)
parse_state()
(in
RepeatMover
)
post_catalog_op()
(in
ABEGOEval
)
parse_def()
(in
DensityMorphingMover
)
parse_state()
(in
SequenceMover
)
post_catalog_op()
(in
EnergyEval
)
parse_def()
(in
ReportFSC
)
parse_state()
(in
StructureRestrictor
)
post_catalog_op()
(in
IdentityEval
)
parse_def()
(in
ScaleMapIntensities
)
parse_state()
(in
TrialMover
)
post_catalog_op()
(in
VallFragmentEval
)
parse_def()
(in
SetupForDensityScoringMover
)
parse_state()
(in
VectorPoseMover
)
post_loop_closure_protocol()
(in
AbrelaxMover
)
parse_def()
(in
ClientMover
)
parse_state()
(in
WhileMover
)
post_process()
(in
WorkUnit_BatchRelax
)
parse_def()
(in
CoMTrackerCM
)
parse_state()
(in
StructAvrgMover
)
post_process()
(in
WorkUnit_BatchRelax_and_PostRescore
)
parse_def()
(in
EnvMover
)
parse_state()
(in
NcbbDockDesignProtocol
)
PostDockAssemblyScorer
(in
rosetta.protocols.domain_assembly._protocols_domain_assembly_
)
parse_def()
(in
ScriptCM
)
parse_state()
(in
OopCreatorMover
)
PostDockAssemblyScorerAP
(in
rosetta.protocols.domain_assembly._protocols_domain_assembly_
)
parse_def()
(in
MultipleDomainMover
)
parse_state()
(in
OopDockDesignProtocol
)
PostDockAssemblyScorerCAP
(in
rosetta.protocols.domain_assembly._protocols_domain_assembly_
)
parse_def()
(in
RNA_DeNovoProtocol
)
parse_state()
(in
CartesianNormalModeMover
)
postgres
(in
e
)
parse_def()
(in
RNA_FragmentMover
)
parse_state()
(in
NormalModeMinimizer
)
postgres
(in
DatabaseMode
)
parse_def()
(in
RNA_LoopCloser
)
parse_state()
(in
NormalModeRelaxMover
)
potential_twobody_memory_use()
(in
DoubleLazyEdge
)
parse_def()
(in
RNA_Minimizer
)
parse_state()
(in
TorsionNormalModeMover
)
potentials
(in
rosetta.protocols.fldsgn
)
parse_def()
(in
RNA_Relaxer
)
parse_state()
(in
SetupPoissonBoltzmannPotential
)
PowExpression
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
parse_def()
(in
ReportToDB
)
parse_state()
(in
AddChainBreak
)
PowExpressionAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
parse_def()
(in
TrajectoryReportToDB
)
parse_state()
(in
AddSidechainConstraintsToHotspots
)
PowExpressionCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
parse_def()
(in
SetupForFibrilMover
)
parse_state()
(in
BackrubDDMover
)
PP()
(in
rosetta.numeric.crick_equations._numeric_crick_equations_
)
parse_def()
(in
CalculatorFilter
)
parse_state()
(in
BestHotspotCstMover
)
ppo_torbin_A
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
CombinedFilter
)
parse_state()
(in
BuildAlaPose
)
ppo_torbin_a
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
CompoundFilter
)
parse_state()
(in
DesignMinimizeHbonds
)
ppo_torbin_A
(in
ppo_torsion_bin
)
parse_def()
(in
ContingentFilter
)
parse_state()
(in
DisulfideMover
)
ppo_torbin_a
(in
ppo_torsion_bin
)
parse_def()
(in
FalseFilter
)
parse_state()
(in
DockAndRetrieveSidechains
)
ppo_torbin_A
(in
rosetta.core.conformation
)
parse_def()
(in
Filter
)
parse_state()
(in
DockWithHotspotMover
)
ppo_torbin_a
(in
rosetta.core.conformation
)
parse_def()
(in
IfThenFilter
)
parse_state()
(in
FavorNativeResiduePreCycle
)
ppo_torbin_A
(in
rosetta
)
parse_def()
(in
MoveBeforeFilter
)
parse_state()
(in
FavorNonNativeResiduePreCycle
)
ppo_torbin_a
(in
rosetta
)
parse_def()
(in
ReplicateFilter
)
parse_state()
(in
HotspotDisjointedFoldTreeMover
)
ppo_torbin_B
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
StochasticFilter
)
parse_state()
(in
HotspotHasherMover
)
ppo_torbin_b
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
TimeFilter
)
parse_state()
(in
InterfaceRecapitulationMover
)
ppo_torbin_B
(in
ppo_torsion_bin
)
parse_def()
(in
TrueFilter
)
parse_state()
(in
LoopFinder
)
ppo_torbin_b
(in
ppo_torsion_bin
)
parse_def()
(in
BluePrintBDR
)
parse_state()
(in
LoopLengthChange
)
ppo_torbin_B
(in
rosetta.core.conformation
)
parse_def()
(in
CircularPermutation
)
parse_state()
(in
LoopMoverFromCommandLine
)
ppo_torbin_b
(in
rosetta.core.conformation
)
parse_def()
(in
MatchResiduesMover
)
parse_state()
(in
LoopOver
)
ppo_torbin_B
(in
rosetta
)
parse_def()
(in
SheetConstraintsRCG
)
parse_state()
(in
LoopRemodel
)
ppo_torbin_b
(in
rosetta
)
parse_def()
(in
CoreDunbrackFilter
)
parse_state()
(in
MapHotspot
)
ppo_torbin_E
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
FragQualFilter
)
parse_state()
(in
PatchdockTransform
)
ppo_torbin_e
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
HSSTripletFilter
)
parse_state()
(in
PeptideStapleDesignMover
)
ppo_torbin_E
(in
ppo_torsion_bin
)
parse_def()
(in
HelixKinkFilter
)
parse_state()
(in
PlaceOnLoop
)
ppo_torbin_e
(in
ppo_torsion_bin
)
parse_def()
(in
HelixPairingFilter
)
parse_state()
(in
PlaceSimultaneouslyMover
)
ppo_torbin_E
(in
rosetta.core.conformation
)
parse_def()
(in
InterlockingAromaFilter
)
parse_state()
(in
PlaceStubMover
)
ppo_torbin_e
(in
rosetta.core.conformation
)
parse_def()
(in
NcontactsFilter
)
parse_state()
(in
PlacementAuctionMover
)
ppo_torbin_E
(in
rosetta
)
parse_def()
(in
ParallelBetaPairingPreferenceFilter
)
parse_state()
(in
PlacementMinimizationMover
)
ppo_torbin_e
(in
rosetta
)
parse_def()
(in
SecondaryStructureCountFilter
)
parse_state()
(in
PrepackMover
)
ppo_torbin_G
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
SecondaryStructureFilter
)
parse_state()
(in
ProteinInterfaceMultiStateDesignMover
)
ppo_torbin_g
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
SecondaryStructureHasResidueFilter
)
parse_state()
(in
RandomMutation
)
ppo_torbin_G
(in
ppo_torsion_bin
)
parse_def()
(in
SheetTopologyFilter
)
parse_state()
(in
RepackMinimize
)
ppo_torbin_g
(in
ppo_torsion_bin
)
parse_def()
(in
SetAACompositionPotential
)
parse_state()
(in
SaveAndRetrieveSidechains
)
ppo_torbin_G
(in
rosetta.core.conformation
)
parse_def()
(in
SetSecStructEnergies
)
parse_state()
(in
SetAtomTree
)
ppo_torbin_g
(in
rosetta.core.conformation
)
parse_def()
(in
FlexPacker
)
parse_state()
(in
SetTemperatureFactor
)
ppo_torbin_G
(in
rosetta
)
parse_def()
(in
FlexPepDockingAbInitio
)
parse_state()
(in
SetupHotspotConstraintsLoopsMover
)
ppo_torbin_g
(in
rosetta
)
parse_def()
(in
FlexPepDockingLowRes
)
parse_state()
(in
SetupHotspotConstraintsMover
)
ppo_torbin_U
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
FlexPepDockingProtocol
)
parse_state()
(in
ShoveResidueMover
)
ppo_torbin_U
(in
ppo_torsion_bin
)
parse_def()
(in
FloppyTailMover
)
parse_state()
(in
SpinMover
)
ppo_torbin_U
(in
rosetta.core.conformation
)
parse_def()
(in
CombinedTaskOperation
)
parse_state()
(in
SubroutineMover
)
ppo_torbin_U
(in
rosetta
)
parse_def()
(in
FlxbbDesign
)
parse_state()
(in
TaskAwareCsts
)
ppo_torbin_X
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
FlxbbDesignPack
)
parse_state()
(in
TopologyBrokerMover
)
ppo_torbin_X
(in
ppo_torsion_bin
)
parse_def()
(in
InterlockAroma
)
parse_state()
(in
TryRotamers
)
ppo_torbin_X
(in
rosetta.core.conformation
)
parse_def()
(in
LayerDesignOperation
)
parse_state()
(in
VLB
)
ppo_torbin_X
(in
rosetta
)
parse_def()
(in
BDR
)
parse_state()
(in
AutoRBMover
)
ppo_torsion_bin
(in
rosetta.core.conformation._core_conformation_
)
parse_def()
(in
VarLengthBuild
)
parse_state()
(in
FragInsertAndAlignMover
)
PQR
(in
rosetta.core.scoring._core_scoring_
)
parse_def()
(in
RemodelConstraintGenerator
)
parse_state()
(in
GaussianRBSegmentMover
)
PQRAP
(in
rosetta.core.scoring._core_scoring_
)
parse_def()
(in
RemodelRotamerLinks
)
parse_state()
(in
HelicalGaussianMover
)
PQRCAP
(in
rosetta.core.scoring._core_scoring_
)
parse_def()
(in
NonlocalFrags
)
parse_state()
(in
IdealizeHelicesMover
)
pre_align()
(in
BindingSiteConstraint
)
parse_def()
(in
TorsionFragmentMover
)
parse_state()
(in
MakeStarTopologyMover
)
pre_catalog_op()
(in
ABEGOEval
)
parse_def()
(in
GeneralizedKIC
)
parse_state()
(in
OptimizeThreadingMover
)
pre_catalog_op()
(in
EnergyEval
)
parse_def()
(in
AnchoredGraftMover
)
parse_state()
(in
RBSegmentMover
)
pre_catalog_op()
(in
IdentityEval
)
parse_def()
(in
CCDEndsGraftMover
)
parse_state()
(in
RBSegmentRelax
)
pre_catalog_op()
(in
VallFragmentEval
)
parse_def()
(in
GraftMoverBase
)
parse_state()
(in
SequenceShiftMover
)
pre_load_data()
(in
AddCDRProfileSetsOperation
)
parse_def()
(in
DeleteRegionMover
)
parse_state()
(in
StrandTwistingMover
)
pre_load_data()
(in
AddCDRProfilesOperation
)
parse_def()
(in
InsertPoseIntoPoseMover
)
parse_state()
(in
AtomCoordinateCstMover
)
pre_loop_closure_protocol()
(in
AbrelaxMover
)
parse_def()
(in
KeepRegionMover
)
parse_state()
(in
CentroidRelax
)
pre_process()
(in
WorkUnit_BatchRelax
)
parse_def()
(in
ReplaceRegionMover
)
parse_state()
(in
ClassicRelax
)
pre_process()
(in
WorkUnit_BatchRelax_and_PostRescore
)
parse_def()
(in
BackboneGridSampler
)
parse_state()
(in
FastRelax
)
pre_process()
(in
FoldandDockClaimer
)
parse_def()
(in
BundleGridSampler
)
parse_state()
(in
LocalRelax
)
pre_process()
(in
MembraneTopologyClaimer
)
parse_def()
(in
FitSimpleHelix
)
parse_state()
(in
MiniRelax
)
pre_process()
(in
TopologyClaimer
)
parse_def()
(in
MakeBundle
)
parse_state()
(in
RelaxProtocolBase
)
pre_scoring()
(in
OtherContextScoreFunction
)
parse_def()
(in
MakeBundleHelix
)
parse_state()
(in
MPFastRelaxMover
)
preallocate()
(in
VallLibrarian
)
parse_def()
(in
PerturbBundle
)
parse_state()
(in
MembraneCenterPerturbationMover
)
preamble()
(in
RDFBase
)
parse_def()
(in
PerturbBundleHelix
)
parse_state()
(in
MembraneNormalPerturbationMover
)
preamble()
(in
RDFBinaryHbondFunction
)
parse_def()
(in
AddSearchPatternRotSetOp
)
parse_state()
(in
MovePoseToMembraneCenterMover
)
preamble()
(in
RDFBinaryOrbitalFunction
)
parse_def()
(in
BackboneTorsionPerturbation
)
parse_state()
(in
RigidBodyDeterministicSpinMover
)
preamble()
(in
RDFChargeFunction
)
parse_def()
(in
BackboneTorsionSampler
)
parse_state()
(in
RigidBodyDofPerturbMover
)
preamble()
(in
RDFElecFunction
)
parse_def()
(in
CartesianHybridize
)
parse_state()
(in
RigidBodyDofRandomTransMover
)
preamble()
(in
RDFEtableFunction
)
parse_def()
(in
CartesianSampler
)
parse_state()
(in
RigidBodyDofRandomizeMover
)
preamble()
(in
RDFHbondFunction
)
parse_def()
(in
ChunkTrialMover
)
parse_state()
(in
RigidBodyDofSeqPerturbMover
)
preamble()
(in
RDFOrbitalFunction
)
parse_def()
(in
DomainAssembly
)
parse_state()
(in
RigidBodyDofSeqRandomizeMover
)
preapply()
(in
GenericMonteCarloMover
)
parse_def()
(in
FoldTreeHybridize
)
parse_state()
(in
RigidBodyDofSeqTransMover
)
precalculate_bb_bb_energy_for_design()
(in
ContextIndependentGeometricSolEnergy
)
parse_def()
(in
HybridizeProtocol
)
parse_state()
(in
RigidBodyDofTransMover
)
precalculate_bb_bb_energy_for_design()
(in
GeometricSolEnergyEvaluator
)
parse_def()
(in
InsertChunkMover
)
parse_state()
(in
RigidBodyMotionMover
)
precision()
(in
SilentStruct
)
parse_def()
(in
MRMover
)
parse_state()
(in
RigidBodyMover
)
precision()
(in
IOTraits_T_double_T
)
parse_def()
(in
WeightedFragmentSmoothTrialMover
)
parse_state()
(in
RigidBodyPerturbMover
)
precision()
(in
IOTraits_T_float_T
)
parse_def()
(in
WeightedFragmentTrialMover
)
parse_state()
(in
RigidBodyPerturbNoCenterMover
)
precision()
(in
IOTraits_T_int_T
)
parse_def()
(in
IdealizeMover
)
parse_state()
(in
RigidBodyPerturbRandomJumpMover
)
precision()
(in
IOTraits_T_long_double_T
)
parse_def()
(in
FragmentLookupFilter
)
parse_state()
(in
RigidBodyRandomizeMover
)
precision()
(in
IOTraits_T_long_int_T
)
parse_def()
(in
InputterStream
)
parse_state()
(in
RigidBodySpinMover
)
precision()
(in
IOTraits_T_long_unsigned_int_T
)
parse_def()
(in
BalancedKicMover
)
parse_state()
(in
RigidBodyTransMover
)
precision()
(in
IOTraits_T_short_int_T
)
parse_def()
(in
KicMover
)
parse_state()
(in
RollMover
)
precision()
(in
IOTraits_T_short_unsigned_int_T
)
parse_def()
(in
AddHydrogen
)
parse_state()
(in
RotateJumpAxisMover
)
precision()
(in
IOTraits_T_unsigned_int_T
)
parse_def()
(in
AddHydrogens
)
parse_state()
(in
UniformRigidBodyCM
)
precompute_all_energies()
(in
FlexbbRotamerSets
)
parse_def()
(in
AtomCountFilter
)
parse_state()
(in
UniformRigidBodyMover
)
precompute_energies()
(in
FlexbbRotamerSets
)
parse_def()
(in
ChainExistsFilter
)
parse_state()
(in
UniformSphereTransMover
)
precompute_transforms()
(in
ExternalGeomSampler
)
parse_def()
(in
CompleteConnectionsFilter
)
parse_state()
(in
WholeBodyRotationMover
)
precompute_two_body_energies()
(in
RotamerSets
)
parse_def()
(in
CompoundTranslate
)
parse_state()
(in
WholeBodyTranslationMover
)
precompute_two_body_energies()
(in
SymmetricRotamerSets
)
parse_def()
(in
ComputeLigandRDF
)
parse_state()
(in
AdditionalOutputWrapper
)
precompute_unweighted_score()
(in
ElectronDensityAtomwise
)
parse_def()
(in
FinalMinimizer
)
parse_state()
(in
MultipleOutputWrapper
)
precomputed
(in
rosetta.protocols.stepwise.modeler
)
parse_def()
(in
GrowLigand
)
parse_state()
(in
MultiplePoseMover
)
precomputed_library_mover()
(in
StepWiseModeler
)
parse_def()
(in
HBondAcceptorFilter
)
parse_state()
(in
ParsedProtocol
)
PrecomputedFlexbbInteractionGraph
(in
rosetta.protocols.flexpack.interaction_graph._protocols_flexpack_interaction_graph_
)
parse_def()
(in
HBondDonorFilter
)
parse_state()
(in
SavePoseMover
)
PrecomputedFlexbbInteractionGraphAP
(in
rosetta.protocols.flexpack.interaction_graph._protocols_flexpack_interaction_graph_
)
parse_def()
(in
HeavyAtomFilter
)
parse_state()
(in
RotamerRecoveryMover
)
PrecomputedFlexbbInteractionGraphCAP
(in
rosetta.protocols.flexpack.interaction_graph._protocols_flexpack_interaction_graph_
)
parse_def()
(in
HighResDocker
)
parse_state()
(in
CAcstGenerator
)
PrecomputedLibraryMover
(in
rosetta.protocols.stepwise.modeler.precomputed._protocols_stepwise_modeler_precomputed_
)
parse_def()
(in
InterfaceScoreCalculator
)
parse_state()
(in
CloseFold
)
PrecomputedLibraryMoverAP
(in
rosetta.protocols.stepwise.modeler.precomputed._protocols_stepwise_modeler_precomputed_
)
parse_def()
(in
LigandDesign
)
parse_state()
(in
CoordinateCst
)
PrecomputedLibraryMoverCAP
(in
rosetta.protocols.stepwise.modeler.precomputed._protocols_stepwise_modeler_precomputed_
)
parse_def()
(in
MinimizeBackbone
)
parse_state()
(in
DefineMovableLoops
)
PrecomputedPairEnergiesEdge
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
MinimizeLigand
)
parse_state()
(in
GrowPeptides
)
PrecomputedPairEnergiesEdgeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
MolarMassFilter
)
parse_state()
(in
SeedFoldTree
)
PrecomputedPairEnergiesEdgeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
MolecularMassFilter
)
parse_state()
(in
SeedSetupMover
)
PrecomputedPairEnergiesInteractionGraph
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
RandomConformerMover
)
parse_state()
(in
SegmentHybridizer
)
PrecomputedPairEnergiesInteractionGraphAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
RandomConformers
)
parse_state()
(in
SwapSegment
)
PrecomputedPairEnergiesInteractionGraphCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
RigidSearchMover
)
parse_state()
(in
EvaluatedTrialMover
)
PrecomputedPairEnergiesNode
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
Rotate
)
parse_state()
(in
AddCavitiesMover
)
PrecomputedPairEnergiesNodeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
Rotates
)
parse_state()
(in
AddChainMover
)
PrecomputedPairEnergiesNodeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
parse_def()
(in
SlideTogether
)
parse_state()
(in
AddConstraintsToCurrentConformationMover
)
Predicate
(in
rosetta.core.scoring._core_scoring_
)
parse_def()
(in
StartFrom
)
parse_state()
(in
AddJobPairData
)
PredicateAP
(in
rosetta.core.scoring._core_scoring_
)
parse_def()
(in
TetherLigand
)
parse_state()
(in
AlignChainMover
)
PredicateCAP
(in
rosetta.core.scoring._core_scoring_
)
parse_def()
(in
Transform
)
parse_state()
(in
BBConRotMover
)
predict()
(in
Svm_rosetta
)
parse_def()
(in
Translate
)
parse_state()
(in
BBG8T3AMover
)
predict_probability()
(in
Svm_rosetta
)
parse_def()
(in
UnconstrainedTorsionsMover
)
parse_state()
(in
BBGaussianMover
)
predict_ss()
(in
SS_predictor
)
parse_def()
(in
WriteLigandMolFile
)
parse_state()
(in
BackboneMover
)
PredictedBurialEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
LoopBuildMover
)
parse_state()
(in
BoltzmannRotamerMover
)
PredictedBurialEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
LoopmodelWrapper
)
parse_state()
(in
ChainSplitMover
)
PredictedBurialEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
LoopBuilder
)
parse_state()
(in
ChangeAndResetFoldTreeMover
)
PredictedBurialFnEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
LoopModeler
)
parse_state()
(in
ClearConstraintsMover
)
PredictedBurialFnEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
LoopMover
)
parse_state()
(in
CombinePoseMover
)
PredictedBurialFnEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_def()
(in
LoopProtocol
)
parse_state()
(in
ConsensusDesignMover
)
preexisting_positions()
(in
Bridge
)
parse_def()
(in
MinimizationRefiner
)
parse_state()
(in
ConstrainToIdealMover
)
preexisting_positions()
(in
BuildInstruction
)
parse_def()
(in
RepackingRefiner
)
parse_state()
(in
ConstraintSetMover
)
preexisting_positions()
(in
BuildManager
)
parse_def()
(in
RotamerTrialsRefiner
)
parse_state()
(in
ContingentAcceptMover
)
preexisting_positions()
(in
ConnectRight
)
parse_def()
(in
LegacyKicSampler
)
parse_state()
(in
CopyDofMover
)
preexisting_positions()
(in
GrowLeft
)
parse_def()
(in
AcceptanceCheck
)
parse_state()
(in
CoupledMover
)
preexisting_positions()
(in
GrowRight
)
parse_def()
(in
LoopFilter
)
parse_state()
(in
CutChainMover
)
preexisting_positions()
(in
SegmentRebuild
)
parse_def()
(in
LoopMoverGroup
)
parse_state()
(in
CyclizationMover
)
preexisting_positions()
(in
SegmentSwap
)
parse_def()
(in
PrepareForCentroid
)
parse_state()
(in
DME_FilterMover
)
PREFERRED_ROOT
(in
rosetta.core.pose.full_model_info
)
parse_def()
(in
PrepareForFullatom
)
parse_state()
(in
DeleteChainsMover
)
PREFERRED_ROOT
(in
FullModelParameterType
)
parse_def()
(in
FastGapMover
)
parse_state()
(in
DesignRepackMover
)
PREFERRED_ROOT
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
parse_def()
(in
LoopHashDiversifier
)
parse_state()
(in
DisulfideInsertionMover
)
preferred_root_res()
(in
FullModelInfo
)
parse_def()
(in
LoopHashLibrary
)
parse_state()
(in
DumpPdb
)
prefix()
(in
PDBWriter
)
parse_def()
(in
LoopHashMoverWrapper
)
parse_state()
(in
EnergyCutRotamerTrialsMinMover
)
preload_motif_data()
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
parse_def()
(in
LoopHashRelaxProtocol
)
parse_state()
(in
EnergyCutRotamerTrialsMover
)
preminimize()
(in
StepWiseMonteCarloOptions
)
parse_def()
(in
Mover_LoopHashRefine
)
parse_state()
(in
ExtendedPoseMover
)
preminimize_pose()
(in
StepWiseMasterMover
)
parse_def()
(in
FoldTreeFromLoops
)
parse_state()
(in
FavorSequenceProfile
)
prep_for_neighbors_perturbation()
(in
FASTERNode
)
parse_def()
(in
CCDLoopClosureMover
)
parse_state()
(in
FavorSymmetricSequence
)
prepack()
(in
StepWiseProteinModelerOptions
)
parse_def()
(in
FASelectSlidingWindowLoopClosure
)
parse_state()
(in
FindConsensusSequence
)
PrepackMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_def()
(in
SlidingWindowLoopClosure
)
parse_state()
(in
ForceDisulfidesMover
)
PrepackMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_def()
(in
WidthFirstSlidingWindowLoopClosure
)
parse_state()
(in
GenericMonteCarloMover
)
PrepackMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_def()
(in
KinematicMover
)
parse_state()
(in
GreenPacker
)
PrepackMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_def()
(in
KinematicWrapper
)
parse_state()
(in
LoadPDBMover
)
PrepackMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_def()
(in
LoopCM
)
parse_state()
(in
LoadUnboundRotMover
)
PrepackMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_def()
(in
LoopRefineInnerCycle
)
parse_state()
(in
MSDMover
)
prepare()
(in
ConstraintPreparer
)
parse_def()
(in
LoopRefineInnerCycleContainer
)
parse_state()
(in
MakePolyXMover
)
prepare()
(in
StagePreparer
)
parse_def()
(in
RepackTrial
)
parse_state()
(in
MembraneTopology
)
prepare_and_write_number_of_electrostatic_interactions_of_residues_to_files()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
parse_def()
(in
ShearMinCCDTrial
)
parse_state()
(in
MinMover
)
prepare_constraints_energy_container()
(in
ConstraintsEnergy
)
parse_def()
(in
SmallMinCCDTrial
)
parse_state()
(in
MinPackMover
)
prepare_enrich_stage()
(in
Scheduler
)
parse_def()
(in
MakeRotLibMover
)
parse_state()
(in
MissingDensityToJumpMover
)
prepare_for_altbb_move_to_closest_state()
(in
MinimalistFlexbbNode
)
parse_def()
(in
MatcherMover
)
parse_state()
(in
ModifyVariantTypeMover
)
prepare_for_altbb_move_to_state()
(in
MinimalistFlexbbNode
)
parse_def()
(in
BuildingBlockInterfaceOperation
)
parse_state()
(in
MonteCarloRecover
)
prepare_for_FASTER()
(in
FASTEREdge
)
parse_def()
(in
ClashCheckFilter
)
parse_state()
(in
MonteCarloReset
)
prepare_for_FASTER()
(in
FASTERInteractionGraph
)
parse_def()
(in
ExtractSubposeMover
)
parse_state()
(in
MonteCarloTest
)
prepare_for_FASTER()
(in
FASTERNode
)
parse_def()
(in
GetRBDOFValues
)
parse_state()
(in
MutateResidue
)
prepare_for_match_enumeration()
(in
ClassicMatchAlgorithm
)
parse_def()
(in
InterfacePackingFilter
)
parse_state()
(in
O2M_MutateMover
)
prepare_for_match_enumeration()
(in
DownstreamAlgorithm
)
parse_def()
(in
MatDesGreedyOptMutationMover
)
parse_state()
(in
PDBReloadMover
)
prepare_for_match_enumeration()
(in
SecondaryMatcherToDownstreamResidue
)
parse_def()
(in
OligomericAverageDegreeFilter
)
parse_state()
(in
PSSM2BfactorMover
)
prepare_for_match_enumeration()
(in
SecondaryMatcherToUpstreamResidue
)
parse_def()
(in
SchemePlaceMotifsMover
)
parse_state()
(in
PackRotamersMover
)
prepare_for_match_enumeration()
(in
WriteUpstreamCoordinateKinemage
)
parse_def()
(in
SymDofMover
)
parse_state()
(in
PackRotamersMoverLazy
)
prepare_for_output_writing()
(in
CloudPDBWriter
)
parse_def()
(in
SymUnsatHbondFilter
)
parse_state()
(in
PeptideStapleMover
)
prepare_for_output_writing()
(in
OutputWriter
)
parse_def()
(in
CartesianMD
)
parse_state()
(in
PeriodicBoxMover
)
prepare_for_output_writing()
(in
PDBWriter
)
parse_def()
(in
MDBase
)
parse_state()
(in
ProlineFixMover
)
prepare_for_output_writing()
(in
PoseMatchOutputWriter
)
parse_def()
(in
MedalExchangeMover
)
parse_state()
(in
RandomOmegaFlipMover
)
prepare_for_output_writing()
(in
WriteKinemageOutputter
)
parse_def()
(in
MedalMover
)
parse_state()
(in
RandomTorsionMover
)
prepare_for_perturbation()
(in
FASTERNode
)
parse_def()
(in
AddMPLigandMover
)
parse_state()
(in
RepackSidechainsMover
)
prepare_for_residue_pair()
(in
AnalyticEtableEnergy
)
parse_def()
(in
AddMembraneMover
)
parse_state()
(in
RepeatPropagationMover
)
prepare_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
parse_def()
(in
FlipMover
)
parse_state()
(in
ReportEffectivePKA
)
prepare_for_residue_pair()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
parse_def()
(in
MembranePositionFromTopologyMover
)
parse_state()
(in
RepulsiveOnlyMover
)
prepare_for_residue_pair()
(in
TableLookupEtableEnergy
)
parse_def()
(in
RandomPositionRotationMover
)
parse_state()
(in
ResetBaselineMover
)
prepare_for_simulated_annealing()
(in
DensePDEdge
)
parse_def()
(in
RandomPositionTranslationMover
)
parse_state()
(in
ResidueTypeConstraintMover
)
prepare_for_simulated_annealing()
(in
DensePDNode
)
parse_def()
(in
RotationMover
)
parse_state()
(in
ReturnSidechainMover
)
prepare_for_simulated_annealing()
(in
DoubleDensePDEdge
)
parse_def()
(in
SetMembraneCenterMover
)
parse_state()
(in
RingConformationMover
)
prepare_for_simulated_annealing()
(in
DoubleDensePDNode
)
parse_def()
(in
SetMembraneNormalMover
)
parse_state()
(in
RotamerTrialsMinMover
)
prepare_for_simulated_annealing()
(in
DoubleLazyEdge
)
parse_def()
(in
SetMembranePositionMover
)
parse_state()
(in
RotamerTrialsMover
)
prepare_for_simulated_annealing()
(in
DoubleLazyInteractionGraph
)
parse_def()
(in
TransformIntoMembraneMover
)
parse_state()
(in
RotamerizeMover
)
prepare_for_simulated_annealing()
(in
DoubleLazyNode
)
parse_def()
(in
TranslationMover
)
parse_state()
(in
SaneMinMover
)
prepare_for_simulated_annealing()
(in
EdgeBase
)
parse_def()
(in
TranslationRotationMover
)
parse_state()
(in
ScoreMover
)
prepare_for_simulated_annealing()
(in
FASTEREdge
)
parse_def()
(in
SymmetricAddMembraneMover
)
parse_state()
(in
SequenceProfileMover
)
prepare_for_simulated_annealing()
(in
FASTERNode
)
parse_def()
(in
VisualizeEmbeddingMover
)
parse_state()
(in
SetReturningPackRotamersMover
)
prepare_for_simulated_annealing()
(in
FixedBBEdge
)
parse_def()
(in
VisualizeMembraneMover
)
parse_state()
(in
SetTorsion
)
prepare_for_simulated_annealing()
(in
InteractionGraphBase
)
parse_def()
(in
ZincHeterodimerMover
)
parse_state()
(in
ShakeStructureMover
)
prepare_for_simulated_annealing()
(in
LazyEdge
)
parse_def()
(in
MotifGraftMover
)
parse_state()
(in
ShearMover
)
prepare_for_simulated_annealing()
(in
LazyNode
)
parse_def()
(in
MotifDnaPacker
)
parse_state()
(in
ShortBackrubMover
)
prepare_for_simulated_annealing()
(in
LinearMemEdge
)
parse_def()
(in
CompositionMover
)
parse_state()
(in
SmallMover
)
prepare_for_simulated_annealing()
(in
LinearMemNode
)
parse_def()
(in
CycleMover
)
parse_state()
(in
SuperimposeMover
)
prepare_for_simulated_annealing()
(in
LinearMemoryInteractionGraph
)
parse_def()
(in
CyclicMover
)
parse_state()
(in
SwitchChainOrderMover
)
prepare_for_simulated_annealing()
(in
NodeBase
)
parse_def()
(in
DsspMover
)
parse_state()
(in
SwitchResidueTypeSetMover
)
prepare_for_simulated_annealing()
(in
OnTheFlyEdge
)
parse_def()
(in
FilterMover
)
parse_state()
(in
TailsScoreMover
)
prepare_for_simulated_annealing()
(in
OnTheFlyNode
)
parse_def()
(in
FilterReporterMover
)
parse_state()
(in
TaskAwareMinMover
)
prepare_for_simulated_annealing()
(in
PDEdge
)
parse_def()
(in
IfMover
)
parse_state()
(in
TorsionDOFMover
)
prepare_for_simulated_annealing()
(in
PDNode
)
parse_def()
(in
IteratedConvergenceMover
)
parse_state()
(in
TorsionSetMover
)
prepare_for_simulated_annealing()
(in
PrecomputedPairEnergiesEdge
)
parse_def()
(in
JumpOutMover
)
parse_state()
(in
Tumble
)
prepare_for_simulated_annealing()
(in
SymmLinearMemEdge
)
parse_def()
(in
MCShowMover
)
parse_state()
(in
UniformRotationMover
)
prepare_for_simulated_annealing()
(in
SymmLinearMemNode
)
parse_def()
(in
MonteCarloUtil
)
parse_state()
(in
UniformTranslationMover
)
prepare_for_simulated_annealing()
(in
SymmLinearMemoryInteractionGraph
)
parse_def()
(in
MoveMapMover
)
parse_state()
(in
VirtualRootMover
)
prepare_for_simulated_annealing()
(in
SymmMinimalistEdge
)
parse_def()
(in
Mover
)
parse_state()
(in
ddG
)
prepare_for_simulated_annealing()
(in
SymmMinimalistInteractionGraph
)
parse_def()
(in
MoverApplyingMover
)
parse_state()
(in
AsymFoldandDockMoveRbJumpMover
)
prepare_for_simulated_annealing()
(in
SymmMinimalistNode
)
parse_def()
(in
MoverContainer
)
parse_state()
(in
AsymFoldandDockRbTrialMover
)
prepare_for_simulated_annealing()
(in
SymmOnTheFlyEdge
)
parse_def()
(in
MoverForPoseList
)
parse_state()
(in
InitializeByBins
)
prepare_for_simulated_annealing()
(in
SymmOnTheFlyNode
)
parse_def()
(in
NullMover
)
parse_state()
(in
PerturbByBins
)
prepare_for_simulated_annealing()
(in
FlexbbEdge
)
parse_def()
(in
PDBDumpMover
)
parse_state()
(in
ChiralMover
)
prepare_for_simulated_annealing()
(in
FlexbbNode
)
parse_def()
(in
ProfilerMover
)
parse_state()
(in
HbsPatcher
)
prepare_for_simulated_annealing()
(in
MinimalistFlexbbEdge
)
parse_def()
(in
PyMolMover
)
parse_state()
(in
OopDPuckMinusMover
)
prepare_for_simulated_annealing()
(in
MinimalistFlexbbNode
)
parse_def()
(in
RampingMover
)
parse_state()
(in
OopDPuckPlusMover
)
prepare_for_simulated_annealing()
(in
OTFFlexbbEdge
)
parse_def()
(in
RandomMover
)
parse_state()
(in
OopMover
)
prepare_for_simulated_annealing()
(in
OTFFlexbbNode
)
parse_def()
(in
RepeatMover
)
parse_state()
(in
OopPatcher
)
prepare_from_prior_sampled_sugar_jobs()
(in
VirtualSugarJustInTimeInstantiator
)
parse_def()
(in
SequenceMover
)
parse_state()
(in
OopPuckMinusMover
)
prepare_from_prior_sampled_sugar_jobs_for_chain_break()
(in
VirtualSugarJustInTimeInstantiator
)
parse_def()
(in
StructureRestrictor
)
parse_state()
(in
OopPuckPlusMover
)
prepare_hashing_packer_task_()
(in
HotspotStubSet
)
parse_def()
(in
TrialMover
)
parse_state()
(in
OopRandomPuckMover
)
prepare_loop_in_stage3()
(in
JumpingFoldConstraintsWrapper
)
parse_def()
(in
VectorPoseMover
)
parse_state()
(in
OopRandomSmallMover
)
prepare_loop_in_stage3()
(in
KinematicAbinitio
)
parse_def()
(in
WhileMover
)
parse_state()
(in
RationalMonteCarlo
)
prepare_loop_in_stage4()
(in
JumpingFoldConstraintsWrapper
)
parse_def()
(in
StructAvrgMover
)
parse_state()
(in
JumpRotamerSidechainMover
)
prepare_loop_in_stage4()
(in
KinematicAbinitio
)
parse_def()
(in
NcbbDockDesignProtocol
)
parse_state()
(in
PerturbChiSidechainMover
)
prepare_pose()
(in
PeptideDeriverFilter
)
parse_def()
(in
OopCreatorMover
)
parse_state()
(in
PerturbRotamerSidechainMover
)
prepare_pose_for_sampling()
(in
KinematicControl
)
parse_def()
(in
OopDockDesignProtocol
)
parse_state()
(in
SetChiMover
)
prepare_rotamers_for_packing()
(in
DunbrackEnergy
)
parse_def()
(in
CartesianNormalModeMover
)
parse_state()
(in
SidechainMCMover
)
prepare_rotamers_for_packing()
(in
CenRotDunEnergy
)
parse_def()
(in
NormalModeMinimizer
)
parse_state()
(in
SidechainMover
)
prepare_rotamers_for_packing()
(in
HPatchEnergy
)
parse_def()
(in
NormalModeRelaxMover
)
parse_state()
(in
SidechainMoverBase
)
prepare_rotamers_for_packing()
(in
SurfaceEnergy
)
parse_def()
(in
TorsionNormalModeMover
)
parse_state()
(in
DetectSymmetry
)
prepare_rotamers_for_packing()
(in
ScoreFunction
)
parse_def()
(in
SetupPoissonBoltzmannPotential
)
parse_state()
(in
ExtractAsymmetricPoseMover
)
prepare_rotamers_for_packing()
(in
CarbonHBondEnergy
)
parse_def()
(in
AtomicContactCountFilter
)
parse_state()
(in
ExtractAsymmetricUnitMover
)
prepare_rotamers_for_packing()
(in
ConstraintsEnergy
)
parse_def()
(in
AverageDegreeFilter
)
parse_state()
(in
FaSymDockingSlideTogether
)
prepare_rotamers_for_packing()
(in
XtalMLEnergy
)
parse_def()
(in
BindingStrainFilter
)
parse_state()
(in
SetupForSymmetryMover
)
prepare_rotamers_for_packing()
(in
FullatomCustomPairDistanceEnergy
)
parse_def()
(in
BoltzmannFilter
)
parse_state()
(in
SetupNCSMover
)
prepare_rotamers_for_packing()
(in
CentroidDisulfideEnergy
)
parse_def()
(in
ClashWithTargetFilter
)
parse_state()
(in
SymDockingInitialPerturbation
)
prepare_rotamers_for_packing()
(in
DisulfideMatchingEnergy
)
parse_def()
(in
DesignableResiduesFilter
)
parse_state()
(in
SymDockingSlideIntoContact
)
prepare_rotamers_for_packing()
(in
FullatomDisulfideEnergy
)
parse_def()
(in
DisulfideFilter
)
parse_state()
(in
SymEnergyCutRotamerTrialsMover
)
prepare_rotamers_for_packing()
(in
DNAChiEnergy
)
parse_def()
(in
FNatFilter
)
parse_state()
(in
SymMinMover
)
prepare_rotamers_for_packing()
(in
DNATorsionEnergy
)
parse_def()
(in
FilterScanFilter
)
parse_state()
(in
SymPackRotamersMover
)
prepare_rotamers_for_packing()
(in
FA_ElecEnergy
)
parse_def()
(in
HbondsToAtomFilter
)
parse_state()
(in
SymRotamerTrialsMover
)
prepare_rotamers_for_packing()
(in
FA_ElecEnergyAroAll
)
parse_def()
(in
HbondsToResidueFilter
)
parse_state()
(in
SymShakeStructureMover
)
prepare_rotamers_for_packing()
(in
FA_ElecEnergyAroAro
)
parse_def()
(in
IRmsdFilter
)
parse_state()
(in
SymmetricRMSMover
)
prepare_rotamers_for_packing()
(in
FA_GrpElecEnergy
)
parse_def()
(in
InterfaceHolesFilter
)
parse_state()
(in
TaskAwareSymMinMover
)
prepare_rotamers_for_packing()
(in
RNA_FA_ElecEnergy
)
parse_def()
(in
LRmsdFilter
)
parse_state()
(in
StepWiseProteinMinimizer
)
prepare_rotamers_for_packing()
(in
ElecDensAllAtomCenEnergy
)
parse_def()
(in
RelativeSegmentFilter
)
parse_state()
(in
StepWiseProteinPoseSetup
)
prepare_rotamers_for_packing()
(in
ElecDensCenEnergy
)
parse_def()
(in
RmsdFilter
)
parse_state()
(in
StepWiseRNA_PoseSetup
)
prepare_rotamers_for_packing()
(in
ElecDensEnergy
)
parse_def()
(in
RmsdSimpleFilter
)
parse_state()
(in
StepWiseConnectionSampler
)
prepare_rotamers_for_packing()
(in
FastDensEnergy
)
parse_def()
(in
SSamountFilter
)
parse_state()
(in
StepWiseMinimizer
)
prepare_rotamers_for_packing()
(in
PattersonCorrEnergy
)
parse_def()
(in
SequenceRecoveryFilter
)
parse_state()
(in
StepWiseModeler
)
prepare_rotamers_for_packing()
(in
ElecDensAtomwiseEnergy
)
parse_def()
(in
SpecificResiduesNearInterfaceFilter
)
parse_state()
(in
SideChainCopier
)
prepare_rotamers_for_packing()
(in
AnalyticEtableEnergy
)
parse_def()
(in
StubScoreFilter
)
parse_state()
(in
StepWisePacker
)
prepare_rotamers_for_packing()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
parse_def()
(in
StubScoreLoopsFilter
)
parse_state()
(in
PolarHydrogenPacker
)
prepare_rotamers_for_packing()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
parse_def()
(in
Torsion
)
parse_state()
(in
PrecomputedLibraryMover
)
prepare_rotamers_for_packing()
(in
TableLookupEtableEnergy
)
parse_def()
(in
AddChainBreak
)
parse_state()
(in
StepWiseProteinBackboneSampler
)
prepare_rotamers_for_packing()
(in
FiberDiffractionEnergy
)
parse_def()
(in
AddSidechainConstraintsToHotspots
)
parse_state()
(in
StepWiseProteinCCD_Closer
)
prepare_rotamers_for_packing()
(in
FiberDiffractionEnergyDens
)
parse_def()
(in
BackrubDDMover
)
parse_state()
(in
StepWiseProteinCCD_MultiPoseCloser
)
prepare_rotamers_for_packing()
(in
ContextDependentGeometricSolEnergy
)
parse_def()
(in
BestHotspotCstMover
)
parse_state()
(in
StepWiseProteinKIC_LoopBridger
)
prepare_rotamers_for_packing()
(in
ContextIndependentGeometricSolEnergy
)
parse_def()
(in
BuildAlaPose
)
parse_state()
(in
BulgeApplyMover
)
prepare_rotamers_for_packing()
(in
ExactOccludedHbondSolEnergy
)
parse_def()
(in
DesignMinimizeHbonds
)
parse_state()
(in
BulgeUnApplyMover
)
prepare_rotamers_for_packing()
(in
OccludedHbondSolEnergy
)
parse_def()
(in
DisulfideMover
)
parse_state()
(in
RNA_ChainClosureChecker
)
prepare_rotamers_for_packing()
(in
OccludedHbondSolEnergy_onebody
)
parse_def()
(in
DockAndRetrieveSidechains
)
parse_state()
(in
RNA_HelixAssembler
)
prepare_rotamers_for_packing()
(in
HackAroEnergy
)
parse_def()
(in
DockWithHotspotMover
)
parse_state()
(in
O2PrimePacker
)
prepare_rotamers_for_packing()
(in
HBondEnergy
)
parse_def()
(in
FavorNativeResiduePreCycle
)
parse_state()
(in
MultiPhosphateSampler
)
prepare_rotamers_for_packing()
(in
DDPscore
)
parse_def()
(in
FavorNonNativeResiduePreCycle
)
parse_state()
(in
PhosphateMover
)
prepare_rotamers_for_packing()
(in
LoopCloseEnergy
)
parse_def()
(in
HotspotDisjointedFoldTreeMover
)
parse_state()
(in
SugarInstantiateMover
)
prepare_rotamers_for_packing()
(in
FaMPEnvEnergy
)
parse_def()
(in
HotspotHasherMover
)
parse_state()
(in
SugarVirtualizeMover
)
prepare_rotamers_for_packing()
(in
FaMPEnvSmoothEnergy
)
parse_def()
(in
InterfaceRecapitulationMover
)
parse_state()
(in
VirtualSugarJustInTimeInstantiator
)
prepare_rotamers_for_packing()
(in
FaMPSolvEnergy
)
parse_def()
(in
LoopFinder
)
parse_state()
(in
VirtualSugarSampler
)
prepare_rotamers_for_packing()
(in
MPCbetaEnergy
)
parse_def()
(in
LoopLengthChange
)
parse_state()
(in
VirtualSugarSamplerFromStringList
)
prepare_rotamers_for_packing()
(in
MPEnvEnergy
)
parse_def()
(in
LoopMoverFromCommandLine
)
parse_state()
(in
StepWiseMonteCarlo
)
prepare_rotamers_for_packing()
(in
MPLipoEnergy
)
parse_def()
(in
LoopOver
)
parse_state()
(in
AddMover
)
prepare_rotamers_for_packing()
(in
MPNonHelixPenalty
)
parse_def()
(in
LoopRemodel
)
parse_state()
(in
AddOrDeleteMover
)
prepare_rotamers_for_packing()
(in
MPPairEnergy
)
parse_def()
(in
MapHotspot
)
parse_state()
(in
DeleteMover
)
prepare_rotamers_for_packing()
(in
MPTMProjPenalty
)
parse_def()
(in
PatchdockTransform
)
parse_state()
(in
FromScratchMover
)
prepare_rotamers_for_packing()
(in
MPTerminiPenalty
)
parse_def()
(in
PeptideStapleDesignMover
)
parse_state()
(in
ResampleMover
)
prepare_rotamers_for_packing()
(in
BurialEnergy
)
parse_def()
(in
PlaceOnLoop
)
parse_state()
(in
StepWiseMasterMover
)
prepare_rotamers_for_packing()
(in
CartesianBondedEnergy
)
parse_def()
(in
PlaceSimultaneouslyMover
)
parse_state()
(in
RNA_AddDeleteMonteCarlo
)
prepare_rotamers_for_packing()
(in
CenHBEnergy
)
parse_def()
(in
PlaceStubMover
)
parse_state()
(in
RNA_O2PrimeMover
)
prepare_rotamers_for_packing()
(in
CenPairEnergy
)
parse_def()
(in
PlacementAuctionMover
)
parse_state()
(in
RNA_TorsionMover
)
prepare_rotamers_for_packing()
(in
CenRotEnvEnergy
)
parse_def()
(in
PlacementMinimizationMover
)
parse_state()
(in
JumpStepWiseSampler
)
prepare_rotamers_for_packing()
(in
CenRotPairEnergy
)
parse_def()
(in
PrepackMover
)
parse_state()
(in
MC_Comb
)
prepare_rotamers_for_packing()
(in
ChainbreakEnergy
)
parse_def()
(in
ProteinInterfaceMultiStateDesignMover
)
parse_state()
(in
MC_OneTorsion
)
prepare_rotamers_for_packing()
(in
ChemicalShiftAnisotropyEnergy
)
parse_def()
(in
RandomMutation
)
parse_state()
(in
NoOpStepWiseSampler
)
prepare_rotamers_for_packing()
(in
ContactOrderEnergy
)
parse_def()
(in
RepackMinimize
)
parse_state()
(in
StepWiseSamplerAny
)
prepare_rotamers_for_packing()
(in
ContextDependentLRTwoBodyEnergy
)
parse_def()
(in
SaveAndRetrieveSidechains
)
parse_state()
(in
StepWiseSamplerComb
)
prepare_rotamers_for_packing()
(in
ContextDependentOneBodyEnergy
)
parse_def()
(in
SetAtomTree
)
parse_state()
(in
StepWiseSamplerOneTorsion
)
prepare_rotamers_for_packing()
(in
ContextDependentTwoBodyEnergy
)
parse_def()
(in
SetTemperatureFactor
)
parse_state()
(in
StepWiseSamplerOneValue
)
prepare_rotamers_for_packing()
(in
ContextIndependentLRTwoBodyEnergy
)
parse_def()
(in
SetupHotspotConstraintsLoopsMover
)
parse_state()
(in
StepWiseSamplerOneValueComb
)
prepare_rotamers_for_packing()
(in
ContextIndependentOneBodyEnergy
)
parse_def()
(in
SetupHotspotConstraintsMover
)
parse_state()
(in
StepWiseSamplerSized
)
prepare_rotamers_for_packing()
(in
ContextIndependentTwoBodyEnergy
)
parse_def()
(in
ShoveResidueMover
)
parse_state()
(in
StepWiseSamplerSizedAny
)
prepare_rotamers_for_packing()
(in
CustomAtomPairEnergy
)
parse_def()
(in
SpinMover
)
parse_state()
(in
StepWiseSamplerSizedComb
)
prepare_rotamers_for_packing()
(in
D2H_SA_Energy
)
parse_def()
(in
SubroutineMover
)
parse_state()
(in
CopyDofStepWiseSampler
)
prepare_rotamers_for_packing()
(in
DNA_BaseEnergy
)
parse_def()
(in
TaskAwareCsts
)
parse_state()
(in
ResidueAlternativeStepWiseSampler
)
prepare_rotamers_for_packing()
(in
DipolarCouplingEnergy
)
parse_def()
(in
TopologyBrokerMover
)
parse_state()
(in
ResidueAlternativeStepWiseSamplerComb
)
prepare_rotamers_for_packing()
(in
DirectReadoutEnergy
)
parse_def()
(in
TryRotamers
)
parse_state()
(in
ResidueListStepWiseSampler
)
prepare_rotamers_for_packing()
(in
DistanceChainbreakEnergy
)
parse_def()
(in
VLB
)
parse_state()
(in
InputStreamStepWiseSampler
)
prepare_rotamers_for_packing()
(in
EnergyMethod
)
parse_def()
(in
AutoRBMover
)
parse_state()
(in
ProteinBetaAntiParallelStepWiseSampler
)
prepare_rotamers_for_packing()
(in
EnvEnergy
)
parse_def()
(in
FragInsertAndAlignMover
)
parse_state()
(in
ProteinFragmentStepWiseSampler
)
prepare_rotamers_for_packing()
(in
EnvSmoothEnergy
)
parse_def()
(in
GaussianRBSegmentMover
)
parse_state()
(in
ProteinMainChainStepWiseSampler
)
prepare_rotamers_for_packing()
(in
Fa_MbenvEnergy
)
parse_def()
(in
HelicalGaussianMover
)
parse_state()
(in
RigidBodyStepWiseSampler
)
prepare_rotamers_for_packing()
(in
Fa_MbsolvEnergy
)
parse_def()
(in
IdealizeHelicesMover
)
parse_state()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
prepare_rotamers_for_packing()
(in
FreeDOF_Energy
)
parse_def()
(in
MakeStarTopologyMover
)
parse_state()
(in
RigidBodyStepWiseSamplerWithResidueList
)
prepare_rotamers_for_packing()
(in
GaussianOverlapEnergy
)
parse_def()
(in
OptimizeThreadingMover
)
parse_state()
(in
RNA_ChiStepWiseSampler
)
prepare_rotamers_for_packing()
(in
GenBornEnergy
)
parse_def()
(in
RBSegmentMover
)
parse_state()
(in
RNA_KIC_Sampler
)
prepare_rotamers_for_packing()
(in
GoapEnergy
)
parse_def()
(in
RBSegmentRelax
)
parse_state()
(in
RNA_KinematicCloser
)
prepare_rotamers_for_packing()
(in
HybridVDW_Energy
)
parse_def()
(in
SequenceShiftMover
)
parse_state()
(in
RNA_MC_MultiSuite
)
prepare_rotamers_for_packing()
(in
IntermolEnergy
)
parse_def()
(in
StrandTwistingMover
)
parse_state()
(in
RNA_MC_Sugar
)
prepare_rotamers_for_packing()
(in
LK_BallEnergy
)
parse_def()
(in
AtomCoordinateCstMover
)
parse_state()
(in
RNA_MC_Suite
)
prepare_rotamers_for_packing()
(in
LK_PolarNonPolarEnergy
)
parse_def()
(in
CentroidRelax
)
parse_state()
(in
RNA_NucleosideStepWiseSampler
)
prepare_rotamers_for_packing()
(in
LK_hack
)
parse_def()
(in
ClassicRelax
)
parse_state()
(in
RNA_SugarStepWiseSampler
)
prepare_rotamers_for_packing()
(in
LinearChainbreakEnergy
)
parse_def()
(in
FastRelax
)
parse_state()
(in
RNA_SuiteStepWiseSampler
)
prepare_rotamers_for_packing()
(in
LongRangeTwoBodyEnergy
)
parse_def()
(in
LocalRelax
)
parse_state()
(in
StepWiseCSA_JobDistributor
)
prepare_rotamers_for_packing()
(in
MMBondAngleEnergy
)
parse_def()
(in
MiniRelax
)
parse_state()
(in
StepWiseJobDistributor
)
prepare_rotamers_for_packing()
(in
MMBondLengthEnergy
)
parse_def()
(in
RelaxProtocolBase
)
parse_state()
(in
StepWiseMonteCarloJobDistributor
)
prepare_rotamers_for_packing()
(in
MMLJEnergyInter
)
parse_def()
(in
MPFastRelaxMover
)
parse_state()
(in
CentroidRelaxMover
)
prepare_rotamers_for_packing()
(in
MMLJEnergyIntra
)
parse_def()
(in
MembraneCenterPerturbationMover
)
parse_state()
(in
FullatomRelaxMover
)
prepare_rotamers_for_packing()
(in
MMTorsionEnergy
)
parse_def()
(in
MembraneNormalPerturbationMover
)
parse_state()
(in
SurfaceDockingProtocol
)
prepare_rotamers_for_packing()
(in
MembraneCbetaEnergy
)
parse_def()
(in
MovePoseToMembraneCenterMover
)
parse_state()
(in
SurfaceOrientMover
)
prepare_rotamers_for_packing()
(in
MembraneCenPairEnergy
)
parse_def()
(in
RigidBodyDeterministicSpinMover
)
parse_state()
(in
SymDockBaseProtocol
)
prepare_rotamers_for_packing()
(in
MembraneEnvEnergy
)
parse_def()
(in
RigidBodyDofPerturbMover
)
parse_state()
(in
SymDockProtocol
)
prepare_rotamers_for_packing()
(in
MembraneEnvPenalties
)
parse_def()
(in
RigidBodyDofRandomTransMover
)
parse_state()
(in
SymDockingHiRes
)
prepare_rotamers_for_packing()
(in
MembraneEnvSmoothEnergy
)
parse_def()
(in
RigidBodyDofRandomizeMover
)
parse_state()
(in
SymDockingLowRes
)
prepare_rotamers_for_packing()
(in
MembraneLipo
)
parse_def()
(in
RigidBodyDofSeqPerturbMover
)
parse_state()
(in
SymFoldandDockMoveRbJumpMover
)
prepare_rotamers_for_packing()
(in
MissingEnergy
)
parse_def()
(in
RigidBodyDofSeqRandomizeMover
)
parse_state()
(in
SymFoldandDockRbTrialMover
)
prepare_rotamers_for_packing()
(in
NMerPSSMEnergy
)
parse_def()
(in
RigidBodyDofSeqTransMover
)
parse_state()
(in
SymFoldandDockSlideTrialMover
)
prepare_rotamers_for_packing()
(in
NMerRefEnergy
)
parse_def()
(in
RigidBodyDofTransMover
)
parse_state()
(in
SymInterfaceSidechainMinMover
)
prepare_rotamers_for_packing()
(in
NMerSVMEnergy
)
parse_def()
(in
RigidBodyMotionMover
)
parse_state()
(in
SymSidechainMinMover
)
prepare_rotamers_for_packing()
(in
OmegaTetherEnergy
)
parse_def()
(in
RigidBodyMover
)
parse_state()
(in
MPSymDockMover
)
prepare_rotamers_for_packing()
(in
OneBodyEnergy
)
parse_def()
(in
RigidBodyPerturbMover
)
parse_state()
(in
AlignPoseToInvrotTreeMover
)
prepare_rotamers_for_packing()
(in
OtherPoseEnergy
)
parse_def()
(in
RigidBodyPerturbNoCenterMover
)
parse_state()
(in
StoreCombinedStoredTasksMover
)
prepare_rotamers_for_packing()
(in
P_AA_Energy
)
parse_def()
(in
RigidBodyPerturbRandomJumpMover
)
parse_state()
(in
StoreCompoundTaskMover
)
prepare_rotamers_for_packing()
(in
P_AA_pp_Energy
)
parse_def()
(in
RigidBodyRandomizeMover
)
parse_state()
(in
StoreTaskMover
)
prepare_rotamers_for_packing()
(in
PackStatEnergy
)
parse_def()
(in
RigidBodySpinMover
)
parse_state()
(in
UnfoldedStateEnergyCalculatorMover
)
prepare_rotamers_for_packing()
(in
PairEnergy
)
parse_def()
(in
RigidBodyTransMover
)
parse_stride_tag_item()
(in
TrajectoryReportToDB
)
prepare_rotamers_for_packing()
(in
PeptideBondEnergy
)
parse_def()
(in
RollMover
)
parse_string_to_boolean_expression()
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
prepare_rotamers_for_packing()
(in
PoissonBoltzmannEnergy
)
parse_def()
(in
RotateJumpAxisMover
)
parse_string_to_expression()
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
prepare_rotamers_for_packing()
(in
ProClosureEnergy
)
parse_def()
(in
UniformRigidBodyCM
)
parse_stub_sets()
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
prepare_rotamers_for_packing()
(in
ProQ_Energy
)
parse_def()
(in
UniformRigidBodyMover
)
parse_tag()
(in
AddBehaviorRLT
)
prepare_rotamers_for_packing()
(in
RG_Energy_Fast
)
parse_def()
(in
UniformSphereTransMover
)
parse_tag()
(in
AllResFilter
)
prepare_rotamers_for_packing()
(in
RG_LocalEnergy
)
parse_def()
(in
WholeBodyRotationMover
)
parse_tag()
(in
AnyResFilter
)
prepare_rotamers_for_packing()
(in
RMS_Energy
)
parse_def()
(in
WholeBodyTranslationMover
)
parse_tag()
(in
AppendResidueRotamerSet
)
prepare_rotamers_for_packing()
(in
Rama2BOffsetEnergy
)
parse_def()
(in
AdditionalOutputWrapper
)
parse_tag()
(in
AppendRotamer
)
prepare_rotamers_for_packing()
(in
RamachandranEnergy
)
parse_def()
(in
MultipleOutputWrapper
)
parse_tag()
(in
AppendRotamerSet
)
prepare_rotamers_for_packing()
(in
RamachandranEnergy2B
)
parse_def()
(in
MultiplePoseMover
)
parse_tag()
(in
ChainIs
)
prepare_rotamers_for_packing()
(in
ReferenceEnergy
)
parse_def()
(in
ParsedProtocol
)
parse_tag()
(in
ChainIsnt
)
prepare_rotamers_for_packing()
(in
ReferenceEnergyNoncanonical
)
parse_def()
(in
SavePoseMover
)
parse_tag()
(in
DisallowIfNonnative
)
prepare_rotamers_for_packing()
(in
ResidualDipolarCouplingEnergy
)
parse_def()
(in
RotamerRecoveryMover
)
parse_tag()
(in
DisallowIfNonnativeRLT
)
prepare_rotamers_for_packing()
(in
ResidualDipolarCouplingEnergy_Rohl
)
parse_def()
(in
CAcstGenerator
)
parse_tag()
(in
ExtraChiCutoff
)
prepare_rotamers_for_packing()
(in
SA_Energy
)
parse_def()
(in
CloseFold
)
parse_tag()
(in
ExtraRotamers
)
prepare_rotamers_for_packing()
(in
SecondaryStructureEnergy
)
parse_def()
(in
CoordinateCst
)
parse_tag()
(in
ExtraRotamersGeneric
)
prepare_rotamers_for_packing()
(in
SequenceDependentRefEnergy
)
parse_def()
(in
DefineMovableLoops
)
parse_tag()
(in
IncludeCurrent
)
prepare_rotamers_for_packing()
(in
ShortRangeTwoBodyEnergy
)
parse_def()
(in
GrowPeptides
)
parse_tag()
(in
InitializeExtraRotsFromCommandline
)
prepare_rotamers_for_packing()
(in
SmoothCenPairEnergy
)
parse_def()
(in
SeedFoldTree
)
parse_tag()
(in
InitializeFromCommandline
)
prepare_rotamers_for_packing()
(in
SmoothEnvEnergy
)
parse_def()
(in
SeedSetupMover
)
parse_tag()
(in
NoRepackDisulfides
)
prepare_rotamers_for_packing()
(in
SuckerEnergy
)
parse_def()
(in
SegmentHybridizer
)
parse_tag()
(in
NoResFilter
)
prepare_rotamers_for_packing()
(in
SymmetricLigandEnergy
)
parse_def()
(in
SwapSegment
)
parse_tag()
(in
OperateOnCertainResidues
)
prepare_rotamers_for_packing()
(in
TwoBodyEnergy
)
parse_def()
(in
AbinitioBaseFilter
)
parse_tag()
(in
OperateOnResidueSubset
)
prepare_rotamers_for_packing()
(in
UnfoldedStateEnergy
)
parse_def()
(in
AlaScan
)
parse_tag()
(in
OptCysHG
)
prepare_rotamers_for_packing()
(in
WaterAdductHBondEnergy
)
parse_def()
(in
AngleToVector
)
parse_tag()
(in
OptH
)
prepare_rotamers_for_packing()
(in
WaterAdductIntraEnergy
)
parse_def()
(in
AtomicContactFilter
)
parse_tag()
(in
PreserveCBeta
)
prepare_rotamers_for_packing()
(in
WholeStructureEnergy
)
parse_def()
(in
AtomicDistanceFilter
)
parse_tag()
(in
PreventRepacking
)
prepare_rotamers_for_packing()
(in
YHHPlanarityEnergy
)
parse_def()
(in
AveragePathLengthFilter
)
parse_tag()
(in
PreventRepackingRLT
)
prepare_rotamers_for_packing()
(in
pHEnergy
)
parse_def()
(in
BuriedUnsatHbondFilter
)
parse_tag()
(in
ReadResfile
)
prepare_rotamers_for_packing()
(in
SugarBackboneEnergy
)
parse_def()
(in
COFilter
)
parse_tag()
(in
ReadResfileAndObeyLengthEvents
)
prepare_rotamers_for_packing()
(in
DFIRE_Energy
)
parse_def()
(in
ConservedPosMutationFilter
)
parse_tag()
(in
ReplicateTask
)
prepare_rotamers_for_packing()
(in
NVscore
)
parse_def()
(in
ConstraintScoreCutoffFilter
)
parse_tag()
(in
ResFilter
)
prepare_rotamers_for_packing()
(in
OrbitalsScore
)
parse_def()
(in
DdGScan
)
parse_tag()
(in
ResFilterComposition
)
prepare_rotamers_for_packing()
(in
HolesEnergy
)
parse_def()
(in
DdgFilter
)
parse_tag()
(in
ResLvlTaskOperation
)
prepare_rotamers_for_packing()
(in
HolesEnergyRes
)
parse_def()
(in
DeltaFilter
)
parse_tag()
(in
ResidueHasProperty
)
prepare_rotamers_for_packing()
(in
SurfEnergy
)
parse_def()
(in
DisulfideEntropyFilter
)
parse_tag()
(in
ResidueIndexIs
)
prepare_rotamers_for_packing()
(in
SurfVolEnergy
)
parse_def()
(in
DomainInterfaceFilter
)
parse_tag()
(in
ResidueIndexIsnt
)
prepare_rotamers_for_packing()
(in
RG_Energy_RNA
)
parse_def()
(in
EnergyPerResidueFilter
)
parse_tag()
(in
ResidueLacksProperty
)
prepare_rotamers_for_packing()
(in
RNA_BulgeEnergy
)
parse_def()
(in
EvaluatedTrialMover
)
parse_tag()
(in
ResidueName3Is
)
prepare_rotamers_for_packing()
(in
RNA_FullAtomStackingEnergy
)
parse_def()
(in
ExpiryFilter
)
parse_tag()
(in
ResidueName3Isnt
)
prepare_rotamers_for_packing()
(in
RNA_FullAtomVDW_BasePhosphate
)
parse_def()
(in
FileExistFilter
)
parse_tag()
(in
ResiduePDBIndexIs
)
prepare_rotamers_for_packing()
(in
RNA_JR_SuiteEnergy
)
parse_def()
(in
FileRemoveFilter
)
parse_tag()
(in
ResiduePDBIndexIsnt
)
prepare_rotamers_for_packing()
(in
RNA_LJ_BaseEnergy
)
parse_def()
(in
GeometryFilter
)
parse_tag()
(in
ResiduePDBInfoHasLabel
)
prepare_rotamers_for_packing()
(in
RNA_Mg_Energy
)
parse_def()
(in
HolesFilter
)
parse_tag()
(in
ResiduePDBInfoLacksLabel
)
prepare_rotamers_for_packing()
(in
RNA_PairwiseLowResolutionEnergy
)
parse_def()
(in
InterRepeatContactFilter
)
parse_tag()
(in
ResidueTypeFilter
)
prepare_rotamers_for_packing()
(in
RNA_SugarCloseEnergy
)
parse_def()
(in
InterfaceBindingEnergyDensityFilter
)
parse_tag()
(in
RestrictAbsentCanonicalAAS
)
prepare_rotamers_for_packing()
(in
RNA_SuiteEnergy
)
parse_def()
(in
InterfaceSasaFilter
)
parse_tag()
(in
RestrictAbsentCanonicalAASRLT
)
prepare_rotamers_for_packing()
(in
RNA_TorsionEnergy
)
parse_def()
(in
IntraRepeatContactFilter
)
parse_tag()
(in
RestrictResidueToRepacking
)
prepare_rotamers_for_packing()
(in
RNA_VDW_Energy
)
parse_def()
(in
LeastNativeLike9merFilter
)
parse_tag()
(in
RestrictToRepacking
)
prepare_rotamers_for_packing()
(in
StackElecEnergy
)
parse_def()
(in
MotifScoreFilter
)
parse_tag()
(in
RestrictToRepackingRLT
)
prepare_rotamers_for_packing()
(in
RNA_ChemicalShiftEnergy
)
parse_def()
(in
MultipleSigmoids
)
parse_tag()
(in
RestrictYSDesign
)
prepare_rotamers_for_packing()
(in
RNA_ChemicalMappingEnergy
)
parse_def()
(in
MutationsFilter
)
parse_tag()
(in
RotamerExplosion
)
prepare_rotamers_for_packing()
(in
RNA_DataBackboneEnergy
)
parse_def()
(in
NMerPSSMEnergyFilter
)
parse_tag()
(in
SetRotamerCouplings
)
prepare_rotamers_for_packing()
(in
FastSAXSEnergy
)
parse_def()
(in
NMerSVMEnergyFilter
)
parse_tag()
(in
SetRotamerLinks
)
prepare_rotamers_for_packing()
(in
SAXSEnergy
)
parse_def()
(in
NeighborTypeFilter
)
parse_tag()
(in
TaskOperation
)
prepare_rotamers_for_packing()
(in
symEnergy
)
parse_def()
(in
NetChargeFilter
)
parse_tag()
(in
AddCDRProfileSetsOperation
)
prepare_rotamers_for_packing()
(in
AACompositionEnergy
)
parse_def()
(in
NonSequentialNeighborsFilter
)
parse_tag()
(in
AddCDRProfilesOperation
)
prepare_rotamers_for_packing()
(in
NatbiasSecondaryStructureEnergy
)
parse_def()
(in
Operator
)
parse_tag()
(in
DisableAntibodyRegionOperation
)
prepare_rotamers_for_packing()
(in
EnsembleEnergy
)
parse_def()
(in
PDDFScoreFilter
)
parse_tag()
(in
DisableCDRsOperation
)
prepare_rotamers_for_packing()
(in
InterchainEnvEnergy
)
parse_def()
(in
PackStatFilter
)
parse_tag()
(in
RestrictToCDRsAndNeighbors
)
prepare_rotamers_for_packing()
(in
InterchainPairEnergy
)
parse_def()
(in
PackerNeighborGraphFilter
)
parse_tag()
(in
RestrictDesignToProteinDNAInterface
)
prepare_rotamers_for_packing()
(in
ResidualDipolarCouplingEnergyRigidSegments
)
parse_def()
(in
PoseComment
)
parse_tag()
(in
WatsonCrickRotamerCouplings
)
prepare_rotamers_for_packing()
(in
SpecialRotamerEnergy
)
parse_def()
(in
PoseInfoFilter
)
parse_tag()
(in
CombinedTaskOperation
)
prepare_rotamers_for_packing()
(in
PCS_Energy
)
parse_def()
(in
RGFilter
)
parse_tag()
(in
LayerDesignOperation
)
prepare_rotamers_for_packing()
(in
PcsEnergy
)
parse_def()
(in
RangeFilter
)
parse_tag()
(in
RemodelRotamerLinks
)
prepare_rotamers_for_packing()
(in
PCS_Energy_Ts1
)
parse_def()
(in
RelativePoseFilter
)
parse_tag()
(in
AddSearchPatternRotSetOp
)
prepare_rotamers_for_packing()
(in
PCS_Energy_Ts2
)
parse_def()
(in
RepeatParameterFilter
)
parse_tag()
(in
BuildingBlockInterfaceOperation
)
prepare_rotamers_for_packing()
(in
PCS_Energy_Ts3
)
parse_def()
(in
ReportFilter
)
parse_tag()
(in
SymRestrictTaskForDocking
)
prepare_rotamers_for_packing()
(in
PCS_Energy_Ts4
)
parse_def()
(in
ResidueBurialFilter
)
parse_tag()
(in
AlignedThreadOperation
)
prepare_rotamers_for_packing()
(in
PDDFEnergy
)
parse_def()
(in
ResidueCountFilter
)
parse_tag()
(in
ConservativeDesignOperation
)
prepare_scratch_residue()
(in
rosetta.core.pose.rna._core_pose_rna_
)
parse_def()
(in
ResidueDistanceFilter
)
parse_tag()
(in
CrystalContactsOperation
)
prepare_search_stage()
(in
Scheduler
)
parse_def()
(in
ResidueIEFilter
)
parse_tag()
(in
DatabaseThread
)
prepare_sets_for_packing()
(in
RotamerSets
)
parse_def()
(in
ResidueSetChainEnergyFilter
)
parse_tag()
(in
DesignAroundOperation
)
prepare_silent_struct()
(in
rosetta.protocols.stepwise.monte_carlo._protocols_stepwise_monte_carlo_
)
parse_def()
(in
ResiduesInInterfaceFilter
)
parse_tag()
(in
DockingNoRepack1
)
prepare_stage1()
(in
JumpingFoldConstraintsWrapper
)
parse_def()
(in
RotamerBoltzmannWeight
)
parse_tag()
(in
DockingNoRepack2
)
prepare_stage1()
(in
KinematicAbinitio
)
parse_def()
(in
SAXSScoreFilter
)
parse_tag()
(in
DsspDesignOperation
)
prepare_stage2()
(in
JumpingFoldConstraintsWrapper
)
parse_def()
(in
SSMotifFinder
)
parse_tag()
(in
ImportUnboundRotamersOperation
)
prepare_stage2()
(in
KinematicAbinitio
)
parse_def()
(in
SavePoseConstraintToFileFilter
)
parse_tag()
(in
InteractingRotamerExplosion
)
prepare_stage3()
(in
JumpingFoldConstraintsWrapper
)
parse_def()
(in
SaveResfileToDiskFilter
)
parse_tag()
(in
JointSequenceOperation
)
prepare_stage3()
(in
KinematicAbinitio
)
parse_def()
(in
ScoreCutoffFilter
)
parse_tag()
(in
LimitAromaChi2Operation
)
prepare_symm_otf_interaction_graph()
(in
SymmetricRotamerSets
)
parse_def()
(in
ScoreTypeFilter
)
parse_tag()
(in
LinkResidues
)
prepare_to_note_hits_for_completed_round()
(in
OccupiedSpaceHash
)
parse_def()
(in
ShapeComplementarityFilter
)
parse_tag()
(in
ModifyAnnealer
)
prepare_WriteToDB_sandwich()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
parse_def()
(in
SheetFilter
)
parse_tag()
(in
MutationSetDesignOperation
)
PrepareForCentroid
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
SidechainRmsdFilter
)
parse_tag()
(in
PreventChainFromRepackingOperation
)
PrepareForCentroidAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
Sigmoid
)
parse_tag()
(in
PreventResiduesFromRepackingOperation
)
PrepareForCentroidCAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
StemFinder
)
parse_tag()
(in
ProteinCore
)
PrepareForCentroidCreator
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
SymmetricMotifFilter
)
parse_tag()
(in
ProteinInterfaceDesignOperation
)
PrepareForCentroidCreatorAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
TaskAwareSASAFilter
)
parse_tag()
(in
ReadResfileFromDB
)
PrepareForCentroidCreatorCAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
TaskAwareScoreTypeFilter
)
parse_tag()
(in
ResidueProbDesignOperation
)
PrepareForFullatom
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
TerminusDistanceFilter
)
parse_tag()
(in
RestrictByCalculatorsOperation
)
PrepareForFullatomAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
TotalSasaFilter
)
parse_tag()
(in
RestrictChainToRepackingOperation
)
PrepareForFullatomCAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
AddCavitiesMover
)
parse_tag()
(in
RestrictConservedLowDdgOperation
)
PrepareForFullatomCreator
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
AddChainMover
)
parse_tag()
(in
RestrictIdentitiesAtAlignedPositionsOperation
)
PrepareForFullatomCreatorAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
AddConstraintsToCurrentConformationMover
)
parse_tag()
(in
RestrictIdentitiesOperation
)
PrepareForFullatomCreatorCAP
(in
rosetta.protocols.loop_modeling.utilities._protocols_loop_modeling_utilities_
)
parse_def()
(in
AddJobPairData
)
parse_tag()
(in
RestrictInterGroupVectorOperation
)
prepend
(in
StubMode
)
parse_def()
(in
AlignChainMover
)
parse_tag()
(in
RestrictNativeResiduesOperation
)
prepend
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
parse_def()
(in
BBConRotMover
)
parse_tag()
(in
RestrictNonSurfaceToRepackingOperation
)
prepend
(in
rosetta.protocols.cyclic_peptide
)
parse_def()
(in
BBG8T3AMover
)
parse_tag()
(in
RestrictOperationsBase
)
prepend_edge()
(in
FoldTree
)
parse_def()
(in
BBGaussianMover
)
parse_tag()
(in
RestrictResiduesToRepackingOperation
)
prepend_output_name()
(in
MetricRecorder
)
parse_def()
(in
BackboneMover
)
parse_tag()
(in
RestrictToAlignedSegmentsOperation
)
prepend_polymer_residue_before_seqpos()
(in
Conformation
)
parse_def()
(in
BoltzmannRotamerMover
)
parse_tag()
(in
RestrictToCDRH3Loop
)
prepend_polymer_residue_before_seqpos()
(in
Pose
)
parse_def()
(in
ChainSplitMover
)
parse_tag()
(in
RestrictToInterface
)
prepend_polymer_residue_before_seqpos()
(in
ProtectedConformation
)
parse_def()
(in
ChangeAndResetFoldTreeMover
)
parse_tag()
(in
RestrictToInterfaceOperation
)
prepend_res()
(in
PDBInfo
)
parse_def()
(in
ClearConstraintsMover
)
parse_tag()
(in
RestrictToInterfaceVectorOperation
)
PrependMainchainAtom
(in
rosetta.core.chemical._core_chemical_
)
parse_def()
(in
CombinePoseMover
)
parse_tag()
(in
RestrictToLoops
)
PrependMainchainAtomAP
(in
rosetta.core.chemical._core_chemical_
)
parse_def()
(in
ConsensusDesignMover
)
parse_tag()
(in
RestrictToLoopsAndNeighbors
)
PrependMainchainAtomCAP
(in
rosetta.core.chemical._core_chemical_
)
parse_def()
(in
ConstrainToIdealMover
)
parse_tag()
(in
RestrictToMoveMapChiOperation
)
preprocess_data()
(in
ResidualDipolarCoupling
)
parse_def()
(in
ConstraintSetMover
)
parse_tag()
(in
RestrictToNeighborhoodOperation
)
preprocess_pose()
(in
PoseInputStream
)
parse_def()
(in
ContingentAcceptMover
)
parse_tag()
(in
RestrictToTerminiOperation
)
prescoring_filter_exists()
(in
BackboneGridSampler
)
parse_def()
(in
CopyDofMover
)
parse_tag()
(in
RetrieveStoredTaskOperation
)
prescoring_mover_exists()
(in
BackboneGridSampler
)
parse_def()
(in
CoupledMover
)
parse_tag()
(in
SelectByDeltaScoreOperation
)
preselection_filter_exists()
(in
BundleGridSampler
)
parse_def()
(in
CutChainMover
)
parse_tag()
(in
SelectByDensityFitOperation
)
preselection_mover_exists()
(in
BundleGridSampler
)
parse_def()
(in
CyclizationMover
)
parse_tag()
(in
SelectBySASAOperation
)
preserve_atom_coords()
(in
MutateResidue
)
parse_def()
(in
DME_FilterMover
)
parse_tag()
(in
SelectResiduesWithinChainOperation
)
preserve_buried_contacts()
(in
EnzdesLoopInfo
)
parse_def()
(in
DeleteChainsMover
)
parse_tag()
(in
SeqprofConsensusOperation
)
preserve_c_beta()
(in
ResidueLevelTask
)
parse_def()
(in
DesignRepackMover
)
parse_tag()
(in
SetIGTypeOperation
)
preserve_c_beta()
(in
ResidueLevelTask_
)
parse_def()
(in
DisulfideInsertionMover
)
parse_tag()
(in
ThreadSequenceOperation
)
preserve_crystinfo()
(in
FileDataOptions
)
parse_def()
(in
DumpPdb
)
parse_task_operations()
(in
DesignProteinBackboneAroundDNA
)
preserve_detailed_balance()
(in
BackrubMover
)
parse_def()
(in
EnergyCutRotamerTrialsMinMover
)
parse_task_operations()
(in
DnaInterfaceMultiStateDesign
)
preserve_detailed_balance()
(in
BackrubSidechainMover
)
parse_def()
(in
EnergyCutRotamerTrialsMover
)
parse_task_operations()
(in
DnaInterfacePacker
)
preserve_detailed_balance()
(in
ThermodynamicMover
)
parse_def()
(in
ExtendedPoseMover
)
parse_task_operations()
(in
FlxbbDesignPack
)
preserve_detailed_balance()
(in
BalancedKicMover
)
parse_def()
(in
FavorSequenceProfile
)
parse_task_operations()
(in
PrepackMover
)
preserve_detailed_balance()
(in
RigidBodyDeterministicSpinMover
)
parse_def()
(in
FavorSymmetricSequence
)
parse_task_operations()
(in
ProteinInterfaceMultiStateDesignMover
)
preserve_detailed_balance()
(in
RigidBodyDofPerturbMover
)
parse_def()
(in
FindConsensusSequence
)
parse_task_operations()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
RigidBodyDofRandomTransMover
)
parse_def()
(in
ForceDisulfidesMover
)
parse_task_operations()
(in
AddConstraintsToCurrentConformationMover
)
preserve_detailed_balance()
(in
RigidBodyDofRandomizeMover
)
parse_def()
(in
GenericMonteCarloMover
)
parse_task_operations()
(in
GenericMonteCarloMover
)
preserve_detailed_balance()
(in
RigidBodyDofSeqPerturbMover
)
parse_def()
(in
GreenPacker
)
parse_task_operations()
(in
MinPackMover
)
preserve_detailed_balance()
(in
RigidBodyDofSeqRandomizeMover
)
parse_def()
(in
LoadPDBMover
)
parse_task_operations()
(in
PackRotamersMover
)
preserve_detailed_balance()
(in
RigidBodyDofSeqTransMover
)
parse_def()
(in
LoadUnboundRotMover
)
parse_task_operations()
(in
PackRotamersMoverLazy
)
preserve_detailed_balance()
(in
RigidBodyDofTransMover
)
parse_def()
(in
MSDMover
)
parse_task_operations()
(in
SetReturningPackRotamersMover
)
preserve_detailed_balance()
(in
RigidBodyMover
)
parse_def()
(in
MakePolyXMover
)
parse_task_operations()
(in
TaskAwareMinMover
)
preserve_detailed_balance()
(in
RigidBodyPerturbMover
)
parse_def()
(in
MembraneTopology
)
parse_task_operations()
(in
SymPackRotamersMover
)
preserve_detailed_balance()
(in
RigidBodyPerturbNoCenterMover
)
parse_def()
(in
MinMover
)
parse_taskdef()
(in
rosetta.protocols.elscripts._protocols_elscripts_
)
preserve_detailed_balance()
(in
RigidBodyPerturbRandomJumpMover
)
parse_def()
(in
MinPackMover
)
parse_use_transactions_tag_item()
(in
ReportToDB
)
preserve_detailed_balance()
(in
RigidBodyRandomizeMover
)
parse_def()
(in
MissingDensityToJumpMover
)
parse_xyz_vector()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
RigidBodySpinMover
)
parse_def()
(in
ModifyVariantTypeMover
)
ParsedProtocol
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
RigidBodyTransMover
)
parse_def()
(in
MonteCarloRecover
)
ParsedProtocolAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
UniformRigidBodyMover
)
parse_def()
(in
MonteCarloReset
)
ParsedProtocolCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
UniformSphereTransMover
)
parse_def()
(in
MonteCarloTest
)
ParsedProtocolCreator
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
BBConRotMover
)
parse_def()
(in
MutateResidue
)
ParsedProtocolCreatorAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
BBG8T3AMover
)
parse_def()
(in
O2M_MutateMover
)
ParsedProtocolCreatorCAP
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
preserve_detailed_balance()
(in
BBGaussianMover
)
parse_def()
(in
PDBReloadMover
)
Parser
(in
rosetta.protocols.jd2._protocols_jd2_
)
preserve_detailed_balance()
(in
BackboneMover
)
parse_def()
(in
PSSM2BfactorMover
)
parser
(in
rosetta.protocols.jd2
)
preserve_detailed_balance()
(in
ShearMover
)
parse_def()
(in
PackRotamersMover
)
ParserAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
preserve_detailed_balance()
(in
SmallMover
)
parse_def()
(in
PackRotamersMoverLazy
)
ParserCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
preserve_detailed_balance()
(in
JumpRotamerSidechainMover
)
parse_def()
(in
PeptideStapleMover
)
ParserJobInputter
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
preserve_detailed_balance()
(in
PerturbChiSidechainMover
)
parse_def()
(in
PeriodicBoxMover
)
ParserJobInputterAP
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
preserve_detailed_balance()
(in
PerturbRotamerSidechainMover
)
parse_def()
(in
ProlineFixMover
)
ParserJobInputterCAP
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
preserve_detailed_balance()
(in
SidechainMCMover
)
parse_def()
(in
RandomOmegaFlipMover
)
ParserJobInputterCreator
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
preserve_detailed_balance()
(in
SidechainMover
)
parse_def()
(in
RandomTorsionMover
)
ParserJobInputterCreatorAP
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
preserve_detailed_balance()
(in
SidechainMoverBase
)
parse_def()
(in
RepackSidechainsMover
)
ParserJobInputterCreatorCAP
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
preserve_header()
(in
FileDataOptions
)
parse_def()
(in
RepeatPropagationMover
)
partial_align()
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
PreserveCBeta
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
ReportEffectivePKA
)
partial_assign_relaxed_state()
(in
FASTERNode
)
PreserveCBetaAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
RepulsiveOnlyMover
)
partial_assign_state()
(in
DoubleLazyNode
)
PreserveCBetaCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
ResetBaselineMover
)
partial_assign_state()
(in
FASTERNode
)
PreserveCBetaCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
ResidueTypeConstraintMover
)
partial_assign_state()
(in
LazyNode
)
PreserveCBetaCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
ReturnSidechainMover
)
partial_assign_state()
(in
LinearMemNode
)
PreserveCBetaCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
RingConformationMover
)
partial_assign_state()
(in
SymmLinearMemNode
)
presetClass()
(in
GDB
)
parse_def()
(in
RotamerTrialsMinMover
)
partial_assign_state()
(in
SymmMinimalistNode
)
pretty()
(in
ASTPrinter
)
parse_def()
(in
RotamerTrialsMover
)
partial_assign_state_with_lowest_one_body_energy()
(in
FASTERNode
)
pretty_print()
(in
MMBondAngleLibrary
)
parse_def()
(in
RotamerizeMover
)
partial_charge()
(in
MolFileIOAtom
)
pretty_print()
(in
MMBondLengthLibrary
)
parse_def()
(in
SaneMinMover
)
partially_assign_state()
(in
MinimalistFlexbbNode
)
pretty_print_atomicoor()
(in
rosetta.core.chemical._core_chemical_
)
parse_def()
(in
ScoreMover
)
PartialSecondarySimilarity
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pretty_print_rd()
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
parse_def()
(in
SequenceProfileMover
)
PartialSecondarySimilarityAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
prevent_repacking()
(in
ResidueLevelTask
)
parse_def()
(in
SetReturningPackRotamersMover
)
PartialSecondarySimilarityCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
prevent_repacking()
(in
ResidueLevelTask_
)
parse_def()
(in
SetTorsion
)
PartialThreadingMover
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
prevent_repacking()
(in
DesignRepackMover
)
parse_def()
(in
ShakeStructureMover
)
PartialThreadingMoverAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
prevent_repacking()
(in
RestrictIdentitiesAtAlignedPositionsOperation
)
parse_def()
(in
ShearMover
)
PartialThreadingMoverCAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
prevent_repacking()
(in
RestrictIdentitiesOperation
)
parse_def()
(in
ShortBackrubMover
)
Particle
(in
rosetta.core.optimization._core_optimization_
)
prevent_repacking()
(in
RestrictNativeResiduesOperation
)
parse_def()
(in
SmallMover
)
ParticleAP
(in
rosetta.core.optimization._core_optimization_
)
PreventChainFromRepackingOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
SuperimposeMover
)
ParticleCAP
(in
rosetta.core.optimization._core_optimization_
)
PreventChainFromRepackingOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
SwitchChainOrderMover
)
ParticleSwarmMinimizer
(in
rosetta.core.optimization._core_optimization_
)
PreventChainFromRepackingOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
SwitchResidueTypeSetMover
)
ParticleSwarmMinimizerAP
(in
rosetta.core.optimization._core_optimization_
)
PreventChainFromRepackingOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
TailsScoreMover
)
ParticleSwarmMinimizerCAP
(in
rosetta.core.optimization._core_optimization_
)
PreventChainFromRepackingOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
TaskAwareMinMover
)
partition_by_jump()
(in
FoldTree
)
PreventChainFromRepackingOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
TorsionDOFMover
)
partition_by_residue()
(in
FoldTree
)
PreventRepacking
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
TorsionSetMover
)
partition_by_symm_jumps()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
PreventRepackingAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
Tumble
)
partition_coloring()
(in
FoldTree
)
PreventRepackingCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
UniformRotationMover
)
PARTITION_CONTACT
(in
rosetta.protocols.stepwise.screener
)
PreventRepackingCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
UniformTranslationMover
)
PARTITION_CONTACT
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
PreventRepackingCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
VirtualRootMover
)
PARTITION_CONTACT
(in
StepWiseScreenerType
)
PreventRepackingCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
ddG
)
partition_definition()
(in
CoarseRNA_LoopCloser
)
PreventRepackingRLT
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
AsymFoldandDockMoveRbJumpMover
)
partition_definition()
(in
StepWiseBasicWorkingParameters
)
PreventRepackingRLTAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
AsymFoldandDockRbTrialMover
)
partition_pose_by_jump()
(in
rosetta.core.pose._core_pose_
)
PreventRepackingRLTCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
InitializeByBins
)
PartitionContactScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
PreventRepackingRLTCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
PerturbByBins
)
PartitionContactScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
PreventRepackingRLTCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
ChiralMover
)
PartitionContactScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
PreventRepackingRLTCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
parse_def()
(in
HbsPatcher
)
PartitionedSearchPattern
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
PreventResiduesFromRepackingOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
OopDPuckMinusMover
)
PartitionedSearchPatternAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
PreventResiduesFromRepackingOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
OopDPuckPlusMover
)
PartitionedSearchPatternCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
PreventResiduesFromRepackingOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
OopMover
)
Partner
(in
rosetta.protocols.rigid._protocols_rigid_
)
PreventResiduesFromRepackingOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
OopPatcher
)
partner()
(in
DockingEnsemble
)
PreventResiduesFromRepackingOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
OopPuckMinusMover
)
partner1()
(in
Contact
)
PreventResiduesFromRepackingOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_def()
(in
OopPuckPlusMover
)
partner2()
(in
Contact
)
previous()
(in
EdgeListElement
)
parse_def()
(in
OopRandomPuckMover
)
partner_downstream
(in
Partner
)
previous_child()
(in
Atom
)
parse_def()
(in
OopRandomSmallMover
)
partner_downstream
(in
rosetta.protocols.rigid._protocols_rigid_
)
previous_child()
(in
Atom_
)
parse_def()
(in
RationalMonteCarlo
)
partner_downstream
(in
rosetta.protocols.rigid
)
previous_round_geometry_still_matchable()
(in
OccupiedSpaceHash
)
parse_def()
(in
JumpRotamerSidechainMover
)
partner_upstream
(in
Partner
)
previous_sibling()
(in
Atom
)
parse_def()
(in
PerturbChiSidechainMover
)
partner_upstream
(in
rosetta.protocols.rigid._protocols_rigid_
)
previous_sibling()
(in
Atom_
)
parse_def()
(in
PerturbRotamerSidechainMover
)
partner_upstream
(in
rosetta.protocols.rigid
)
previous_working_pack_res()
(in
StepWisePacker
)
parse_def()
(in
SetChiMover
)
partners()
(in
DockSetupMover
)
PRF_BASIC
(in
rosetta.protocols.analysis
)
parse_def()
(in
SidechainMCMover
)
partners()
(in
DockingHighRes
)
PRF_BASIC
(in
rosetta.protocols.analysis._protocols_analysis_
)
parse_def()
(in
SidechainMover
)
partners()
(in
DockingProtocol
)
PRF_BASIC
(in
PeptideDeriverReportFormat
)
parse_def()
(in
SidechainMoverBase
)
partners()
(in
TemperedDocking
)
PRF_MARKDOWN
(in
rosetta.protocols.analysis
)
parse_def()
(in
DetectSymmetry
)
pass_count()
(in
AlignRMSD_Screener
)
PRF_MARKDOWN
(in
rosetta.protocols.analysis._protocols_analysis_
)
parse_def()
(in
ExtractAsymmetricPoseMover
)
pass_metropolis()
(in
SimAnnealerBase
)
PRF_MARKDOWN
(in
PeptideDeriverReportFormat
)
parse_def()
(in
ExtractAsymmetricUnitMover
)
pass_metropolis()
(in
SidechainMetropolisHastingsMover
)
PrimaryKey
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
parse_def()
(in
FaSymDockingSlideTogether
)
pass_start_pose()
(in
H3RefineCCD
)
PrimaryKeyAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
parse_def()
(in
SetupForSymmetryMover
)
pass_start_pose()
(in
RefineOneCDRLoop
)
PrimaryKeyCAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
parse_def()
(in
SetupNCSMover
)
pass_the_loop()
(in
H3PerturbCCD
)
principal_component()
(in
HelicalFragment
)
parse_def()
(in
SymDockingInitialPerturbation
)
passed_automorphism()
(in
MotifHit
)
principal_components_and_eigenvalues_ndimensions()
(in
rosetta.numeric._numeric_
)
parse_def()
(in
SymDockingSlideIntoContact
)
passes_com_vector_criterion()
(in
NumNeighborsMPM
)
PrincipalQuantumNumber
(in
ElectronConfiguration
)
parse_def()
(in
SymEnergyCutRotamerTrialsMover
)
passes_filter()
(in
LimitHitsPerRotamerFilter
)
PrincipalQuantumNumber_strings()
(in
ElectronConfiguration
)
parse_def()
(in
SymMinMover
)
passes_filter()
(in
MatchCollisionFilter
)
print()
(in
Column
)
parse_def()
(in
SymPackRotamersMover
)
passes_filter()
(in
MatchFilter
)
print()
(in
Constraint
)
parse_def()
(in
SymRotamerTrialsMover
)
passes_filter()
(in
StateAccumulatingMatchFilter
)
print()
(in
DbBigInt
)
parse_def()
(in
SymShakeStructureMover
)
passes_filter()
(in
UpstreamCollisionFilter
)
print()
(in
DbDataType
)
parse_def()
(in
SymmetricRMSMover
)
passes_filter()
(in
UpstreamDownstreamCollisionFilter
)
print()
(in
DbDouble
)
parse_def()
(in
TaskAwareSymMinMover
)
passes_filter()
(in
FoldandDockClaimer
)
print()
(in
DbInteger
)
parse_def()
(in
StepWiseProteinMinimizer
)
passes_filter()
(in
MembraneTopologyClaimer
)
print()
(in
DbReal
)
parse_def()
(in
StepWiseProteinPoseSetup
)
passes_filter()
(in
TopologyClaimer
)
print()
(in
DbText
)
parse_def()
(in
StepWiseRNA_PoseSetup
)
passes_filters()
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
print()
(in
DbTextKey
)
parse_def()
(in
StepWiseConnectionSampler
)
passes_hardsphere_filter()
(in
UpstreamCollisionFilter
)
print()
(in
DbUUID
)
parse_def()
(in
StepWiseMinimizer
)
passes_hardsphere_filter()
(in
UpstreamDownstreamCollisionFilter
)
print()
(in
ForeignKey
)
parse_def()
(in
StepWiseModeler
)
passport()
(in
EXCN_Env_Security_Exception
)
print()
(in
GreaterThanConstraint
)
parse_def()
(in
SideChainCopier
)
passport_updated()
(in
LoopCM
)
print()
(in
Index
)
parse_def()
(in
StepWisePacker
)
Patch
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
PrimaryKey
)
parse_def()
(in
PolarHydrogenPacker
)
patch_operation_from_patch_file_line()
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
Schema
)
parse_def()
(in
PrecomputedLibraryMover
)
patch_str()
(in
AnnotatedSequence
)
print()
(in
UniqueConstraint
)
parse_def()
(in
StepWiseProteinBackboneSampler
)
PatchAP
(in
rosetta.core.chemical._core_chemical_
)
Print()
(in
QuatSet
)
parse_def()
(in
StepWiseProteinCCD_Closer
)
PatchCAP
(in
rosetta.core.chemical._core_chemical_
)
Print()
(in
Quaternion
)
parse_def()
(in
StepWiseProteinCCD_MultiPoseCloser
)
PatchCase
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
QuaternionGrid
)
parse_def()
(in
StepWiseProteinKIC_LoopBridger
)
PatchCaseAP
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
AtomType
)
parse_def()
(in
BulgeApplyMover
)
PatchCaseCAP
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
Bond
)
parse_def()
(in
BulgeUnApplyMover
)
patchdock_entry_num()
(in
PatchdockReader
)
print()
(in
Orbital
)
parse_def()
(in
RNA_ChainClosureChecker
)
patchdock_fname()
(in
PatchdockReader
)
print()
(in
Node
)
parse_def()
(in
RNA_HelixAssembler
)
PatchdockReader
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
print()
(in
DensePDNode
)
parse_def()
(in
O2PrimePacker
)
PatchdockReaderAP
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
print()
(in
DotSphere
)
parse_def()
(in
MultiPhosphateSampler
)
PatchdockReaderCAP
(in
rosetta.protocols.protein_interface_design._protocols_protein_interface_design_
)
print()
(in
DoubleDensePDNode
)
parse_def()
(in
PhosphateMover
)
PatchdockTransform
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
print()
(in
DoubleLazyNode
)
parse_def()
(in
SugarInstantiateMover
)
PatchdockTransformAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
print()
(in
FASTERNode
)
parse_def()
(in
SugarVirtualizeMover
)
PatchdockTransformCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
print()
(in
InteractionGraphBase
)
parse_def()
(in
VirtualSugarJustInTimeInstantiator
)
PatchdockTransformCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
print()
(in
LazyNode
)
parse_def()
(in
VirtualSugarSampler
)
PatchdockTransformCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
print()
(in
LinearMemNode
)
parse_def()
(in
VirtualSugarSamplerFromStringList
)
PatchdockTransformCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
print()
(in
NodeBase
)
parse_def()
(in
StepWiseMonteCarlo
)
PatchOperation
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
OnTheFlyNode
)
parse_def()
(in
AddMover
)
PatchOperationAP
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
PDNode
)
parse_def()
(in
AddOrDeleteMover
)
PatchOperationCAP
(in
rosetta.core.chemical._core_chemical_
)
print()
(in
RotamerDots
)
parse_def()
(in
DeleteMover
)
path()
(in
Motif
)
print()
(in
RotamerDotsCache
)
parse_def()
(in
FromScratchMover
)
path()
(in
FileName
)
print()
(in
SimpleNode
)
parse_def()
(in
ResampleMover
)
path()
(in
PathName
)
print()
(in
SymmLinearMemNode
)
parse_def()
(in
StepWiseMasterMover
)
path_dist()
(in
AtomNeighbor
)
print()
(in
SymmMinimalistNode
)
parse_def()
(in
RNA_AddDeleteMonteCarlo
)
path_distance()
(in
ResidueType
)
print()
(in
SymmOnTheFlyNode
)
parse_def()
(in
RNA_O2PrimeMover
)
path_distance()
(in
Residue
)
print()
(in
PoseMetricContainer
)
parse_def()
(in
RNA_TorsionMover
)
path_distance()
(in
CountPairGeneric
)
print()
(in
EMapVector
)
parse_def()
(in
JumpStepWiseSampler
)
path_distances()
(in
ResidueType
)
print()
(in
EnergyNode
)
parse_def()
(in
MC_Comb
)
path_distances()
(in
Residue
)
print()
(in
MembraneTopology
)
parse_def()
(in
MC_OneTorsion
)
path_tightness()
(in
AveragePathLengthFilter
)
print()
(in
MinimizationNode
)
parse_def()
(in
NoOpStepWiseSampler
)
PathName
(in
rosetta.utility.file._utility_file_
)
print()
(in
TenANeighborNode
)
parse_def()
(in
StepWiseSamplerAny
)
pathname()
(in
rosetta.utility._utility_
)
print()
(in
TwelveANeighborNode
)
parse_def()
(in
StepWiseSamplerComb
)
PathNameAP
(in
rosetta.utility.file._utility_file_
)
print()
(in
ConstraintNode
)
parse_def()
(in
StepWiseSamplerOneTorsion
)
PathNameCAP
(in
rosetta.utility.file._utility_file_
)
print()
(in
ElecAtom
)
parse_def()
(in
StepWiseSamplerOneValue
)
patterson_cc
(in
ScoreType
)
print()
(in
CountPairDataGeneric
)
parse_def()
(in
StepWiseSamplerOneValueComb
)
patterson_cc
(in
rosetta.core.scoring._core_scoring_
)
print()
(in
CountPairData_1_1
)
parse_def()
(in
StepWiseSamplerSized
)
patterson_cc
(in
rosetta.core.scoring
)
print()
(in
CountPairData_1_2
)
parse_def()
(in
StepWiseSamplerSizedAny
)
patterson_cc
(in
rosetta
)
print()
(in
CountPairData_1_3
)
parse_def()
(in
StepWiseSamplerSizedComb
)
patterson_corr_energy
(in
LongRangeEnergyType
)
print()
(in
EtableAtom
)
parse_def()
(in
CopyDofStepWiseSampler
)
patterson_corr_energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
print()
(in
TrieCountPair1BC3
)
parse_def()
(in
ResidueAlternativeStepWiseSampler
)
patterson_corr_energy
(in
rosetta.core.scoring.methods
)
print()
(in
TrieCountPairAll
)
parse_def()
(in
ResidueAlternativeStepWiseSamplerComb
)
PattersonCorrEnergy
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
print()
(in
TrieCountPairGeneric
)
parse_def()
(in
ResidueListStepWiseSampler
)
PattersonCorrEnergyAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
print()
(in
TrieCountPairNone
)
parse_def()
(in
InputStreamStepWiseSampler
)
PattersonCorrEnergyCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
print()
(in
HBAtom
)
parse_def()
(in
ProteinBetaAntiParallelStepWiseSampler
)
PattersonCorrEnergyCreator
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
print()
(in
HBCPData
)
parse_def()
(in
ProteinFragmentStepWiseSampler
)
PattersonCorrEnergyCreatorAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
print()
(in
HBCountPairFunction
)
parse_def()
(in
ProteinMainChainStepWiseSampler
)
PattersonCorrEnergyCreatorCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
print()
(in
MMEnergyTableAtom
)
parse_def()
(in
RigidBodyStepWiseSampler
)
pb_bound_tag()
(in
EnergyMethodOptions
)
print()
(in
RotamerTrieBase
)
parse_def()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
PB_elec
(in
rosetta
)
print()
(in
TokenSet
)
parse_def()
(in
RigidBodyStepWiseSamplerWithResidueList
)
PB_elec
(in
rosetta.core.scoring
)
print()
(in
DnaChains
)
parse_def()
(in
RNA_ChiStepWiseSampler
)
PB_elec
(in
rosetta.core.scoring._core_scoring_
)
print()
(in
FlexbbNode
)
parse_def()
(in
RNA_KIC_Sampler
)
PB_elec
(in
ScoreType
)
print()
(in
MinimalistFlexbbNode
)
parse_def()
(in
RNA_KinematicCloser
)
PB_elec_lr
(in
rosetta.core.scoring.methods
)
print()
(in
OTFFlexbbNode
)
parse_def()
(in
RNA_MC_MultiSuite
)
PB_elec_lr
(in
LongRangeEnergyType
)
print()
(in
NonlocalPair
)
parse_def()
(in
RNA_MC_Sugar
)
PB_elec_lr
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
print()
(in
TorsionFragmentLibrary
)
parse_def()
(in
RNA_MC_Suite
)
PB_LIFETIME_CACHE
(in
Enum
)
print()
(in
ScoreMap
)
parse_def()
(in
RNA_NucleosideStepWiseSampler
)
PB_LIFETIME_CACHE
(in
CacheableDataType
)
print()
(in
BackboneSegment
)
parse_def()
(in
RNA_SugarStepWiseSampler
)
pb_potential
(in
rosetta.protocols
)
print()
(in
AtomAngleSecMatchRPE
)
parse_def()
(in
RNA_SuiteStepWiseSampler
)
pb_unbound_tag()
(in
EnergyMethodOptions
)
print()
(in
AtomDihedralSecMatchRPE
)
parse_def()
(in
StepWiseCSA_JobDistributor
)
pbest()
(in
Particle
)
print()
(in
AtomDistanceSecMatchRPE
)
parse_def()
(in
StepWiseJobDistributor
)
PBLifetimeCache
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
print()
(in
AtomGeometrySecMatchRPE
)
parse_def()
(in
StepWiseMonteCarloJobDistributor
)
PBLifetimeCacheAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
print()
(in
Motif
)
parse_def()
(in
CentroidRelaxMover
)
PBLifetimeCacheCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
print()
(in
MoverStatistics
)
parse_def()
(in
FullatomRelaxMover
)
PBP_clustering_at_chain_closure()
(in
StepWiseRNA_ModelerOptions
)
print()
(in
PyMolMover
)
parse_def()
(in
SurfaceDockingProtocol
)
PCA
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
print()
(in
PocketGrid
)
parse_def()
(in
SurfaceOrientMover
)
PCAAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
print()
(in
RBSegmentMover
)
parse_def()
(in
SymDockBaseProtocol
)
PCACAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
print()
(in
Interface
)
parse_def()
(in
SymDockProtocol
)
pCAP
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
print()
(in
SilentStructStore
)
parse_def()
(in
SymDockingHiRes
)
pci_cation_pi
(in
ScoreType
)
print()
(in
WorkUnitBase
)
parse_def()
(in
SymDockingLowRes
)
pci_cation_pi
(in
rosetta.core.scoring._core_scoring_
)
print()
(in
WorkUnit
)
parse_def()
(in
SymFoldandDockMoveRbJumpMover
)
pci_cation_pi
(in
rosetta.core.scoring
)
print()
(in
WorkUnit_ElScripts
)
parse_def()
(in
SymFoldandDockRbTrialMover
)
pci_cation_pi
(in
rosetta
)
print()
(in
WorkUnit_Wait
)
parse_def()
(in
SymFoldandDockSlideTrialMover
)
pci_hbond
(in
ScoreType
)
print_addresses_at_level()
(in
HierarchicalLevel
)
parse_def()
(in
SymInterfaceSidechainMinMover
)
pci_hbond
(in
rosetta.core.scoring._core_scoring_
)
print_all_bond_lengths()
(in
IdealBondLengthSet
)
parse_def()
(in
SymRestrictTaskForDocking
)
pci_hbond
(in
rosetta.core.scoring
)
print_all_info()
(in
SHOBuriedUnsatisfiedPolarsCalculator
)
parse_def()
(in
SymSidechainMinMover
)
pci_hbond
(in
rosetta
)
print_all_types()
(in
MMAtomTypeSet
)
parse_def()
(in
MPSymDockMover
)
pci_pi_pi
(in
ScoreType
)
print_allowed_types()
(in
ResidueLevelTask
)
parse_def()
(in
AlignPoseToInvrotTreeMover
)
pci_pi_pi
(in
rosetta.core.scoring._core_scoring_
)
print_allowed_types()
(in
ResidueLevelTask_
)
parse_def()
(in
AlignedThreadOperation
)
pci_pi_pi
(in
rosetta.core.scoring
)
print_alt_energies()
(in
OTFFlexbbEdge
)
parse_def()
(in
ConservativeDesignOperation
)
pci_pi_pi
(in
rosetta
)
print_atom_pair_constraints()
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
parse_def()
(in
CrystalContactsOperation
)
pci_salt_bridge
(in
ScoreType
)
print_avg_cluster_centroid_dist()
(in
MakeRotLibMover
)
parse_def()
(in
DatabaseThread
)
pci_salt_bridge
(in
rosetta.core.scoring._core_scoring_
)
print_base_state()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
parse_def()
(in
DesignAroundOperation
)
pci_salt_bridge
(in
rosetta.core.scoring
)
print_bit_string()
(in
RotamerDotsCache
)
parse_def()
(in
DockingNoRepack1
)
pci_salt_bridge
(in
rosetta
)
print_bondangles()
(in
ResidueType
)
parse_def()
(in
DockingNoRepack2
)
PCluster
(in
rosetta.protocols.pockets._protocols_pockets_
)
print_cache()
(in
GeneticAlgorithm
)
parse_def()
(in
DsspDesignOperation
)
PClusterAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
print_cache()
(in
GeneticAlgorithmBase
)
parse_def()
(in
ImportUnboundRotamersOperation
)
PClusterCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
print_chis()
(in
rosetta.core.chemical._core_chemical_
)
parse_def()
(in
InteractingRotamerExplosion
)
PClusterSet
(in
rosetta.protocols.pockets._protocols_pockets_
)
print_cluster_assignment()
(in
ClusterBase
)
parse_def()
(in
JointSequenceOperation
)
PClusterSetAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
print_cluster_assignment()
(in
ClusterBase
)
parse_def()
(in
LimitAromaChi2Operation
)
PClusterSetCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
print_cluster_PDBs()
(in
ClusterBase
)
parse_def()
(in
LinkResidues
)
pconf_creation()
(in
Environment
)
print_clusters_silentfile()
(in
ClusterBase
)
parse_def()
(in
ModifyAnnealer
)
pconf_destruction()
(in
Environment
)
print_comments()
(in
PDBSilentStruct
)
parse_def()
(in
MutationSetDesignOperation
)
pcs
(in
ScoreType
)
print_comments()
(in
BinarySilentStruct
)
parse_def()
(in
PreventChainFromRepackingOperation
)
pcs
(in
rosetta.core.scoring._core_scoring_
)
print_comments()
(in
RNA_SilentStruct
)
parse_def()
(in
PreventResiduesFromRepackingOperation
)
pcs
(in
rosetta.core.scoring
)
print_comments()
(in
RigidBodySilentStruct
)
parse_def()
(in
ProteinInterfaceDesignOperation
)
pcs
(in
rosetta
)
print_comments()
(in
ScoreFileSilentStruct
)
parse_def()
(in
ReadResfileFromDB
)
pcs
(in
rosetta.protocols.scoring.methods
)
print_comments()
(in
ScoreJumpFileSilentStruct
)
parse_def()
(in
ResidueProbDesignOperation
)
pcs2
(in
ScoreType
)
print_comments()
(in
SilentStruct
)
parse_def()
(in
RestrictByCalculatorsOperation
)
pcs2
(in
rosetta.core.scoring._core_scoring_
)
print_conformation()
(in
PDBSilentStruct
)
parse_def()
(in
RestrictChainToRepackingOperation
)
pcs2
(in
rosetta.core.scoring
)
print_conformation()
(in
DecoyStruct
)
parse_def()
(in
RestrictConservedLowDdgOperation
)
pcs2
(in
rosetta
)
print_conformation()
(in
RawStruct
)
parse_def()
(in
RestrictIdentitiesAtAlignedPositionsOperation
)
pcs2
(in
rosetta.protocols.scoring.methods
)
print_conformation()
(in
ScoreStructJSON
)
parse_def()
(in
RestrictIdentitiesOperation
)
PCS_data
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_conformation()
(in
ScoreStructText
)
parse_def()
(in
RestrictInterGroupVectorOperation
)
PCS_data_from_pose()
(in
PCS_Energy
)
print_conformation()
(in
BinarySilentStruct
)
parse_def()
(in
RestrictNativeResiduesOperation
)
PCS_data_from_pose()
(in
PCS_Energy_Ts1
)
print_conformation()
(in
RNA_SilentStruct
)
parse_def()
(in
RestrictNonSurfaceToRepackingOperation
)
PCS_data_from_pose()
(in
PCS_Energy_Ts2
)
print_conformation()
(in
RigidBodySilentStruct
)
parse_def()
(in
RestrictOperationsBase
)
PCS_data_from_pose()
(in
PCS_Energy_Ts3
)
print_conformation()
(in
ScoreFileSilentStruct
)
parse_def()
(in
RestrictResiduesToRepackingOperation
)
PCS_data_from_pose()
(in
PCS_Energy_Ts4
)
print_conformation()
(in
ScoreJumpFileSilentStruct
)
parse_def()
(in
RestrictToAlignedSegmentsOperation
)
PCS_data_input
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_conformation()
(in
SilentStruct
)
parse_def()
(in
RestrictToCDRH3Loop
)
PCS_data_input_manager
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_current_energy()
(in
DoubleLazyEdge
)
parse_def()
(in
RestrictToInterface
)
PCS_data_input_manager_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_current_energy()
(in
LazyEdge
)
parse_def()
(in
RestrictToInterfaceOperation
)
PCS_data_input_manager_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_current_energy()
(in
LinearMemEdge
)
parse_def()
(in
RestrictToInterfaceVectorOperation
)
PCS_data_input_manager_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_current_energy()
(in
SymmLinearMemEdge
)
parse_def()
(in
RestrictToLoops
)
PCS_data_input_manager_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_current_energy()
(in
SymmMinimalistEdge
)
parse_def()
(in
RestrictToLoopsAndNeighbors
)
PCS_data_input_manager_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_current_state_assignment()
(in
DensePDInteractionGraph
)
parse_def()
(in
RestrictToMoveMapChiOperation
)
PCS_data_input_manager_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_current_state_assignment()
(in
DoubleDensePDInteractionGraph
)
parse_def()
(in
RestrictToNeighborhoodOperation
)
PCS_data_input_manager_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_current_state_assignment()
(in
DoubleLazyInteractionGraph
)
parse_def()
(in
RestrictToTerminiOperation
)
PCS_data_input_manager_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_current_state_assignment()
(in
FASTERInteractionGraph
)
parse_def()
(in
RetrieveStoredTaskOperation
)
PCS_data_input_manager_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_current_state_assignment()
(in
InteractionGraphBase
)
parse_def()
(in
SelectByDeltaScoreOperation
)
PCS_data_input_manager_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_current_state_assignment()
(in
LazyInteractionGraph
)
parse_def()
(in
SelectByDensityFitOperation
)
PCS_data_input_manager_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_current_state_assignment()
(in
LinearMemoryInteractionGraph
)
parse_def()
(in
SelectBySASAOperation
)
PCS_data_input_manager_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_current_state_assignment()
(in
PDInteractionGraph
)
parse_def()
(in
SelectResiduesWithinChainOperation
)
PCS_data_input_managerAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_current_state_assignment()
(in
SymmLinearMemoryInteractionGraph
)
parse_def()
(in
SeqprofConsensusOperation
)
PCS_data_input_managerCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_current_state_assignment()
(in
SymmMinimalistInteractionGraph
)
parse_def()
(in
SetIGTypeOperation
)
PCS_data_input_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_current_state_assignment()
(in
MinimalistFlexbbInteractionGraph
)
parse_def()
(in
StoreCombinedStoredTasksMover
)
PCS_data_input_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_d()
(in
rosetta.core.io.pdb._core_io_pdb_
)
parse_def()
(in
StoreCompoundTaskMover
)
PCS_data_input_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_debug()
(in
MembraneAbinitio
)
parse_def()
(in
StoreTaskMover
)
PCS_data_input_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_definitions()
(in
MakeRotLibMover
)
parse_def()
(in
ThreadSequenceOperation
)
PCS_data_input_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_dihedrals()
(in
ResidueType
)
parse_def()
(in
UnfoldedStateEnergyCalculatorMover
)
PCS_data_input_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_dofs()
(in
WrapperOptEMultifunc
)
parse_def_opts()
(in
DnaInterfaceMinMover
)
PCS_data_input_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_dunbrack02_rotlib()
(in
MakeRotLibMover
)
parse_def_opts()
(in
MinMover
)
PCS_data_input_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_dunbrack10_rotlib()
(in
MakeRotLibMover
)
parse_def_opts()
(in
SymMinMover
)
PCS_data_input_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_entity_history()
(in
PackDaemon
)
parse_default_and_user_options()
(in
CDRGraftDesignOptionsParser
)
PCS_data_input_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_fragment()
(in
FragmentCandidate
)
parse_default_and_user_options()
(in
CDRSeqDesignOptionsParser
)
PCS_data_input_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_fragment_seq()
(in
FragmentCandidate
)
parse_dof_task_type()
(in
MinMover
)
PCS_data_input_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_generation_statistics()
(in
GeneticAlgorithm
)
parse_dof_tasks()
(in
MinMover
)
PCS_data_inputAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_generation_statistics()
(in
GeneticAlgorithmBase
)
parse_energies()
(in
SilentStruct
)
PCS_data_inputCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_grid_param()
(in
PCS_Energy_parameters_manager
)
parse_file()
(in
MolFileIOReader
)
PCS_data_per_lanthanides
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_grid_param()
(in
PCS_Energy_parameters_manager_Ts1
)
parse_files()
(in
OrbitalsLookup
)
PCS_data_per_lanthanides_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_grid_param()
(in
PCS_Energy_parameters_manager_Ts2
)
parse_filter()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
PCS_data_per_lanthanides_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_grid_param()
(in
PCS_Energy_parameters_manager_Ts3
)
parse_format_string()
(in
FormatStringOutputter
)
PCS_data_per_lanthanides_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_grid_param()
(in
PCS_Energy_parameters_manager_Ts4
)
parse_heterogen_name_for_carbohydrate_residues()
(in
FileData
)
PCS_data_per_lanthanides_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_hbonds()
(in
rosetta.protocols.farna._protocols_farna_
)
parse_in_progress()
(in
HeaderInformation
)
PCS_data_per_lanthanides_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_header()
(in
PDBSilentStruct
)
parse_lsm_spec()
(in
LSMSearchPattern
)
PCS_data_per_lanthanides_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_header()
(in
DecoyStruct
)
parse_movemap()
(in
CartesianMD
)
PCS_data_per_lanthanides_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_header()
(in
RawStruct
)
parse_movemap()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
PCS_data_per_lanthanides_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_header()
(in
ScoreStructJSON
)
parse_movemapdef()
(in
rosetta.protocols.elscripts._protocols_elscripts_
)
PCS_data_per_lanthanides_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_header()
(in
ScoreStructText
)
parse_mover()
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
PCS_data_per_lanthanides_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_header()
(in
BinarySilentStruct
)
parse_my_string_arguments_and_cast_to_globalPrivateSpaceVariables()
(in
MotifGraftMover
)
PCS_data_per_lanthanides_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_header()
(in
RNA_SilentStruct
)
parse_my_tag()
(in
DatabaseSessionOptions
)
PCS_data_per_lanthanides_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_header()
(in
RigidBodySilentStruct
)
parse_my_tag()
(in
ResourceLocator
)
PCS_data_per_lanthanidesAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_header()
(in
ScoreFileSilentStruct
)
parse_my_tag()
(in
ResourceOptions
)
PCS_data_per_lanthanidesCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_header()
(in
ScoreJumpFileSilentStruct
)
parse_my_tag()
(in
DatabaseResourceLocator
)
PCS_data_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_header()
(in
SilentStruct
)
parse_my_tag()
(in
FileListResourceLocator
)
PCS_data_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_header()
(in
ResPairMotif
)
parse_my_tag()
(in
FileSystemResourceLocator
)
PCS_data_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_i()
(in
rosetta.core.io.pdb._core_io_pdb_
)
parse_my_tag()
(in
NullResourceLocator
)
PCS_data_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_info()
(in
BasePair
)
parse_my_tag()
(in
ResidueLoaderOptions
)
PCS_data_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_internal_coords()
(in
rosetta.protocols.farna._protocols_farna_
)
parse_my_tag()
(in
SymmDataOptions
)
PCS_data_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_internal_energies()
(in
DensePDNode
)
parse_my_tag()
(in
ImportPoseOptions
)
PCS_data_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_internal_energies()
(in
DoubleDensePDNode
)
parse_my_tag()
(in
FileDataOptions
)
PCS_data_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_internal_energies()
(in
DoubleLazyNode
)
parse_my_tag()
(in
PDB_DReaderOptions
)
PCS_data_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_internal_energies()
(in
FASTERNode
)
parse_my_tag()
(in
SilentFileOptions
)
PCS_data_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_internal_energies()
(in
LazyNode
)
parse_my_tag()
(in
AndResidueSelector
)
PCS_data_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_internal_energies()
(in
LinearMemNode
)
parse_my_tag()
(in
ChainSelector
)
PCS_data_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_internal_energies()
(in
PDNode
)
parse_my_tag()
(in
ClashBasedRepackShellSelector
)
PCS_dataAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_internal_energies()
(in
SymmLinearMemNode
)
parse_my_tag()
(in
InterGroupInterfaceByVectorSelector
)
PCS_dataCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_internal_energies()
(in
SymmMinimalistNode
)
parse_my_tag()
(in
JumpDownstreamSelector
)
PCS_Energy
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_internal_energies()
(in
FlexbbNode
)
parse_my_tag()
(in
JumpUpstreamSelector
)
PCS_Energy_parameters_manager
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_metric()
(in
Pose
)
parse_my_tag()
(in
NeighborhoodResidueSelector
)
PCS_Energy_parameters_manager_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_mutation_data()
(in
MutationData
)
parse_my_tag()
(in
NotResidueSelector
)
PCS_Energy_parameters_manager_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_pack_report()
(in
VIP_Mover
)
parse_my_tag()
(in
NumNeighborsSelector
)
PCS_Energy_parameters_manager_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_parent_remarks()
(in
SilentStruct
)
parse_my_tag()
(in
OrResidueSelector
)
PCS_Energy_parameters_manager_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_particles()
(in
ParticleSwarmMinimizer
)
parse_my_tag()
(in
ResidueIndexSelector
)
PCS_Energy_parameters_manager_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_point()
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
parse_my_tag()
(in
ResidueNameSelector
)
PCS_Energy_parameters_manager_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_points()
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
parse_my_tag()
(in
ResidueSelector
)
PCS_Energy_parameters_manager_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_population()
(in
GeneticAlgorithm
)
parse_my_tag()
(in
SecondaryStructureSelector
)
PCS_Energy_parameters_manager_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_population()
(in
GeneticAlgorithmBase
)
parse_my_tag()
(in
TrueResidueSelector
)
PCS_Energy_parameters_manager_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_pretty_path_distances()
(in
ResidueType
)
parse_my_tag()
(in
ElectronDensityOptions
)
PCS_Energy_parameters_manager_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_probabilities()
(in
rosetta.numeric._numeric_
)
parse_my_tag()
(in
EtableOptions
)
PCS_Energy_parameters_manager_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_quantiles()
(in
XformScore
)
parse_my_tag()
(in
FiberDiffractionOptions
)
PCS_Energy_parameters_manager_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_raw_numbers()
(in
ClusterBase
)
parse_my_tag()
(in
HBondOptions
)
PCS_Energy_parameters_managerAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_relax_report()
(in
VIP_Mover
)
parse_my_tag()
(in
RotamerDumpMover
)
PCS_Energy_parameters_managerCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_report()
(in
BoundedCollector_T_protocols_frag_picker_CompareTotalScore_T
)
parse_my_tag()
(in
AbrelaxMover
)
PCS_Energy_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_report()
(in
CandidatesCollector
)
parse_my_tag()
(in
ClassicAbinitio
)
PCS_Energy_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_report()
(in
GrabAllCollector
)
parse_my_tag()
(in
ConstraintFragmentSampler
)
PCS_Energy_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_report()
(in
ABEGO_SS_Pool
)
parse_my_tag()
(in
DomainAssembly
)
PCS_Energy_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_report()
(in
QuotaCollector
)
parse_my_tag()
(in
DoubleLayerKinematicAbinitio
)
PCS_Energy_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_report()
(in
QuotaPool
)
parse_my_tag()
(in
FoldConstraints
)
PCS_Energy_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_report()
(in
SecondaryStructurePool
)
parse_my_tag()
(in
FragmentSampler
)
PCS_Energy_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_residue_numbers()
(in
PDBSilentStruct
)
parse_my_tag()
(in
JumpingFoldConstraintsWrapper
)
PCS_Energy_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_residue_numbers()
(in
BinarySilentStruct
)
parse_my_tag()
(in
KinematicAbinitio
)
PCS_Energy_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_residue_numbers()
(in
RNA_SilentStruct
)
parse_my_tag()
(in
KinematicTaskControl
)
PCS_Energy_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_residue_numbers()
(in
RigidBodySilentStruct
)
parse_my_tag()
(in
LoopJumpFoldCst
)
PCS_Energy_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_residue_numbers()
(in
ScoreFileSilentStruct
)
parse_my_tag()
(in
MembraneAbinitio
)
PCS_Energy_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_residue_numbers()
(in
ScoreJumpFileSilentStruct
)
parse_my_tag()
(in
Protocol
)
PCS_EnergyAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_residue_numbers()
(in
SilentStruct
)
parse_my_tag()
(in
ResolutionSwitcher
)
PCS_EnergyCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_roc_curve()
(in
RocCurve
)
parse_my_tag()
(in
AbscriptLoopCloserCM
)
PCS_experimental()
(in
PCS_line_data
)
print_rot_data()
(in
MakeRotLibMover
)
parse_my_tag()
(in
AbscriptMover
)
PCS_experimental()
(in
PCS_line_data_Ts1
)
print_rot_data_vec()
(in
MakeRotLibMover
)
parse_my_tag()
(in
AbscriptStageMover
)
PCS_experimental()
(in
PCS_line_data_Ts2
)
print_rot_vec()
(in
RotamerRecovery
)
parse_my_tag()
(in
ConstraintPreparer
)
PCS_experimental()
(in
PCS_line_data_Ts3
)
print_score()
(in
ConstraintedOptimizationWeightFunc
)
parse_my_tag()
(in
FragmentCM
)
PCS_experimental()
(in
PCS_line_data_Ts4
)
print_score()
(in
DDGBindOptEData
)
parse_my_tag()
(in
FragmentJumpCM
)
PCS_file_data
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_score()
(in
DDGMutationOptEData
)
parse_my_tag()
(in
RigidChunkCM
)
PCS_file_data_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_score()
(in
DGBindOptEData
)
parse_my_tag()
(in
StagePreparer
)
PCS_file_data_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_score()
(in
NestedEnergyTermDDGMutationOptEData
)
parse_my_tag()
(in
StructPerturberCM
)
PCS_file_data_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_score()
(in
NestedEnergyTermPNatAAOptEPositionData
)
parse_my_tag()
(in
InterfaceAnalyzerMover
)
PCS_file_data_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_score()
(in
OptEPositionData
)
parse_my_tag()
(in
LoopAnalyzerMover
)
PCS_file_data_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_score()
(in
PNatAAOptEPositionData
)
parse_my_tag()
(in
PackStatMover
)
PCS_file_data_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_score()
(in
PNatLigPoseOptEData
)
parse_my_tag()
(in
PeptideDeriverFilter
)
PCS_file_data_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_score()
(in
PNatRotOptEPositionData
)
parse_my_tag()
(in
AnchoredDesignMover
)
PCS_file_data_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_score()
(in
PNatStructureOptEData
)
parse_my_tag()
(in
AnchoredPerturbMover
)
PCS_file_data_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_score()
(in
PSSMOptEPositionData
)
parse_my_tag()
(in
AnchoredRefineMover
)
PCS_file_data_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_score_functions()
(in
FullatomDisulfidePotential
)
parse_my_tag()
(in
AntibodyFeatures
)
PCS_file_data_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_score_header()
(in
PDBSilentStruct
)
parse_my_tag()
(in
AntibodyModelerProtocol
)
PCS_file_data_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_score_header()
(in
BinarySilentStruct
)
parse_my_tag()
(in
CDRsMinPackMin
)
PCS_file_dataAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_score_header()
(in
RNA_SilentStruct
)
parse_my_tag()
(in
CloseOneCDRLoop
)
PCS_file_dataCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_score_header()
(in
RigidBodySilentStruct
)
parse_my_tag()
(in
GraftCDRLoopsProtocol
)
PCS_FragDistance
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
print_score_header()
(in
ScoreFileSilentStruct
)
parse_my_tag()
(in
GraftOneCDRLoop
)
PCS_FragDistanceAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
print_score_header()
(in
ScoreJumpFileSilentStruct
)
parse_my_tag()
(in
GraftedStemOptimizer
)
PCS_FragDistanceCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
print_score_header()
(in
SilentStruct
)
parse_my_tag()
(in
H3CterInsert
)
PCS_line_data
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_scores()
(in
PDBSilentStruct
)
parse_my_tag()
(in
H3PerturbCCD
)
PCS_line_data_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_scores()
(in
DecoyStruct
)
parse_my_tag()
(in
H3RefineCCD
)
PCS_line_data_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_scores()
(in
RawStruct
)
parse_my_tag()
(in
LHRepulsiveRamp
)
PCS_line_data_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_scores()
(in
ScoreStructJSON
)
parse_my_tag()
(in
ModelCDRH3
)
PCS_line_data_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_scores()
(in
ScoreStructText
)
parse_my_tag()
(in
RefineBetaBarrel
)
PCS_line_data_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_scores()
(in
BinarySilentStruct
)
parse_my_tag()
(in
RefineOneCDRLoop
)
PCS_line_data_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_scores()
(in
RNA_SilentStruct
)
parse_my_tag()
(in
RefineOneCDRLoopCentroid
)
PCS_line_data_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_scores()
(in
RigidBodySilentStruct
)
parse_my_tag()
(in
CDRClusterFeatures
)
PCS_line_data_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_scores()
(in
ScoreFileSilentStruct
)
parse_my_tag()
(in
CDRDihedralConstraintMover
)
PCS_line_data_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_scores()
(in
ScoreJumpFileSilentStruct
)
parse_my_tag()
(in
ParatopeEpitopeSiteConstraintMover
)
PCS_line_data_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_scores()
(in
SilentStruct
)
parse_my_tag()
(in
ParatopeSiteConstraintMover
)
PCS_line_data_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_scores()
(in
XformScore
)
parse_my_tag()
(in
AntibodyDesignMover
)
PCS_line_data_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_scores_norm()
(in
XformScore
)
parse_my_tag()
(in
AntibodyDesignProtocol
)
PCS_line_dataAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_sequence_pdb_nums()
(in
rosetta.protocols.dna._protocols_dna_
)
parse_my_tag()
(in
MutateFrameworkForCluster
)
PCS_line_dataCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_sequences_pdb_nums()
(in
rosetta.protocols.dna._protocols_dna_
)
parse_my_tag()
(in
AntibodyModeler
)
PCS_multi_data_from_noone()
(in
PcsEnergy
)
print_string_to_PDBfile()
(in
GenPharmacophore
)
parse_my_tag()
(in
CDRH3Modeler
)
PCS_multi_data_from_pose()
(in
PcsEnergy
)
print_sugar_pucker_state()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
parse_my_tag()
(in
CloseOneMover
)
PCS_tensor
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
print_summary()
(in
ClusterBase
)
parse_my_tag()
(in
GraftMover
)
PCS_tensor_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_summary()
(in
ClusterBase
)
parse_my_tag()
(in
GraftOneMover
)
PCS_tensor_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_to_file()
(in
FingerprintBase
)
parse_my_tag()
(in
LoopRlxMover
)
PCS_tensor_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
print_to_oegrid()
(in
ElectrostaticpotentialGrid
)
parse_my_tag()
(in
BackrubMover
)
PCS_tensor_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_to_pdb()
(in
FingerprintBase
)
parse_my_tag()
(in
BackrubProtocol
)
PCS_tensor_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_torsion_info()
(in
rosetta.core.pose.rna._core_pose_rna_
)
parse_my_tag()
(in
BackrubSidechainMover
)
PCS_tensor_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
print_torsion_info()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
parse_my_tag()
(in
BiasEnergy
)
PCS_tensor_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_tree()
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
parse_my_tag()
(in
CanonicalSamplingMover
)
PCS_tensor_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_vertex_groups()
(in
InteractionGraphBase
)
parse_my_tag()
(in
FixedTemperatureController
)
PCS_tensor_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
print_vertices()
(in
Graph
)
parse_my_tag()
(in
HamiltonianExchange
)
PCS_tensor_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_vertices()
(in
InteractionGraphBase
)
parse_my_tag()
(in
MetricRecorder
)
PCS_tensor_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
print_WorkingParameters_info()
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
parse_my_tag()
(in
MetropolisHastingsMover
)
PCS_tensor_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
printContent()
(in
SmallMol
)
parse_my_tag()
(in
PDBTrajectoryRecorder
)
PCS_tensorAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
printCoordinates()
(in
SmallMol
)
parse_my_tag()
(in
ParallelTempering
)
PCS_tensorCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
PrintErrorAndQuit()
(in
TMalign
)
parse_my_tag()
(in
ProgressBarObserver
)
PCS_tolerance()
(in
PCS_line_data
)
PrintEuler()
(in
Quaternion
)
parse_my_tag()
(in
SidechainMetropolisHastingsMover
)
PCS_tolerance()
(in
PCS_line_data_Ts1
)
printGrishinFormat()
(in
SequenceAlignment
)
parse_my_tag()
(in
SilentTrajectoryRecorder
)
PCS_tolerance()
(in
PCS_line_data_Ts2
)
printMatrix()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
parse_my_tag()
(in
SimulatedTempering
)
PCS_tolerance()
(in
PCS_line_data_Ts3
)
printVector()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
parse_my_tag()
(in
TemperatureController
)
PCS_tolerance()
(in
PCS_line_data_Ts4
)
prioritize()
(in
WorkUnit
)
parse_my_tag()
(in
TemperingBase
)
PcsDataCenter
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
priority()
(in
Tracer
)
parse_my_tag()
(in
ThermodynamicMover
)
PcsDataCenterAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
priority()
(in
SequenceClaim
)
parse_my_tag()
(in
ThermodynamicObserver
)
PcsDataCenterCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
PrioSubtype
(in
ClaimStrength
)
parse_my_tag()
(in
TrajectoryRecorder
)
PcsDataCenterManager
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
private_data_to_public_array()
(in
CentroidRotamerSampleData
)
parse_my_tag()
(in
TrialCounterObserver
)
PcsDataCenterManagerAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
pro_cd_cprev_n_ca_interres_torsion_params()
(in
ResidueCartBondedParameters
)
parse_my_tag()
(in
AssignToClustersMover
)
PcsDataCenterManagerCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
pro_CD_index()
(in
ResidueCartBondedParameters
)
parse_my_tag()
(in
ClusterBase
)
PcsDataCenterManagerSingleton
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
pro_close
(in
ScoreType
)
parse_my_tag()
(in
ClusterPhilStyle
)
PcsDataCenterManagerSingletonAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
pro_close
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
ClusterPhilStyle_Loop
)
PcsDataCenterManagerSingletonCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
pro_close
(in
rosetta.core.scoring
)
parse_my_tag()
(in
ClusterPhilStyle_PoseReporter
)
PcsDataLanthanide
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
pro_close
(in
rosetta
)
parse_my_tag()
(in
EnsembleConstraints
)
PcsDataLanthanideAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob()
(in
CentroidRotamerSampleData
)
parse_my_tag()
(in
EnsembleConstraints_Simple
)
PcsDataLanthanideCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_amino_acid
(in
OptEPositionDataType
)
parse_my_tag()
(in
GatherPosesMover
)
PcsEnergy
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_amino_acid
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
CoarseRNA_LoopCloser
)
PcsEnergyAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_amino_acid
(in
rosetta.protocols.optimize_weights
)
parse_my_tag()
(in
ExtraThreadingMover
)
PcsEnergyCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_amino_acid_with_unfolded_energy
(in
OptEPositionDataType
)
parse_my_tag()
(in
LoopRelaxMover
)
PcsEnergyCreator
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_amino_acid_with_unfolded_energy
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
LoopRelaxThreadingMover
)
PcsEnergyCreatorAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_amino_acid_with_unfolded_energy
(in
rosetta.protocols.optimize_weights
)
parse_my_tag()
(in
MultiThreadingMover
)
PcsEnergyCreatorCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_ligand_pose
(in
OptEPositionDataType
)
parse_my_tag()
(in
PartialThreadingMover
)
PcsEnergyParameter
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_ligand_pose
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
RecoverSideChainsMover
)
PcsEnergyParameterAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_ligand_pose
(in
rosetta.protocols.optimize_weights
)
parse_my_tag()
(in
StealLigandMover
)
PcsEnergyParameterCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_rotamer
(in
OptEPositionDataType
)
parse_my_tag()
(in
StealSideChainsMover
)
PcsEnergyParameterManager
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_rotamer
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
ThreadingMover
)
PcsEnergyParameterManagerAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_rotamer
(in
rosetta.protocols.optimize_weights
)
parse_my_tag()
(in
ContactMap
)
PcsEnergyParameterManagerCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_structure
(in
OptEPositionDataType
)
parse_my_tag()
(in
FitBfactorsMover
)
PcsGridSearchParameter
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_structure
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
LoadDensityMapMover
)
PcsGridSearchParameterAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_native_structure
(in
rosetta.protocols.optimize_weights
)
parse_my_tag()
(in
RecomputeDensityMapMover
)
PcsGridSearchParameterCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_random_pert_current()
(in
BackrubSidechainMover
)
parse_my_tag()
(in
SetCrystWeightMover
)
PcsGridSearchParameterManager
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_random_pert_current()
(in
SidechainMover
)
parse_my_tag()
(in
SetRefinementOptionsMover
)
PcsGridSearchParameterManagerAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_sum_of_gaussians()
(in
SOGFunc_Impl
)
parse_my_tag()
(in
TagPoseWithRefinementStatsMover
)
PcsGridSearchParameterManagerCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_to_accumulate()
(in
SingleResidueDunbrackLibrary
)
parse_my_tag()
(in
UpdateSolventMover
)
PcsInputCenter
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_to_accumulate()
(in
SingleResiduePeptoidLibrary
)
parse_my_tag()
(in
CreateAngleConstraint
)
PcsInputCenterAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_to_accumulate_buried()
(in
SingleResidueDunbrackLibrary
)
parse_my_tag()
(in
CreateDistanceConstraint
)
PcsInputCenterCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_to_accumulate_buried()
(in
SingleResiduePeptoidLibrary
)
parse_my_tag()
(in
CreateTorsionConstraint
)
PcsInputCenterManager
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_to_accumulate_nonburied()
(in
SingleResidueDunbrackLibrary
)
parse_my_tag()
(in
DeclareBond
)
PcsInputCenterManagerAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_to_accumulate_nonburied()
(in
SingleResiduePeptoidLibrary
)
parse_my_tag()
(in
PeptideStubMover
)
PcsInputCenterManagerCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_uniform()
(in
BackrubSidechainMover
)
parse_my_tag()
(in
ddGMover
)
PcsInputFile
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_uniform()
(in
SidechainMover
)
parse_my_tag()
(in
ExposedHydrophobicsFilter
)
PcsInputFileAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_withinrot()
(in
BackrubSidechainMover
)
parse_my_tag()
(in
GreedyOptMutationMover
)
PcsInputFileCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
prob_withinrot()
(in
SidechainMover
)
parse_my_tag()
(in
ParetoOptMutationMover
)
PcsInputLine
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
probA()
(in
PackingScore
)
parse_my_tag()
(in
DesignProteinBackboneAroundDNA
)
PcsInputLineAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
probabilistically_commit_relaxation()
(in
FASTERInteractionGraph
)
parse_my_tag()
(in
DnaInterfaceMinMover
)
PcsInputLineCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
probability()
(in
DunbrackRotamerSampleData
)
parse_my_tag()
(in
DnaInterfaceMultiStateDesign
)
PcsTensor
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
probability()
(in
ABEGO_SS_Config
)
parse_my_tag()
(in
DnaInterfacePacker
)
PcsTensorAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
probability_limit()
(in
BuildSet
)
parse_my_tag()
(in
SeparateDnaFromNonDna
)
PcsTensorCAP
(in
rosetta.protocols.scoring.methods.pcs2._protocols_scoring_methods_pcs2_
)
probability_matrix()
(in
BinTransitionData
)
parse_my_tag()
(in
ConformerSwitchMover
)
pcsTs1
(in
ScoreType
)
probability_row()
(in
SequenceProfile
)
parse_my_tag()
(in
DockMCMCycle
)
pcsTs1
(in
rosetta.core.scoring._core_scoring_
)
probability_to_accumulate_while_building_rotamers()
(in
SingleResidueDunbrackLibrary
)
parse_my_tag()
(in
DockMCMProtocol
)
pcsTs1
(in
rosetta.core.scoring
)
probability_to_accumulate_while_building_rotamers()
(in
SingleResiduePeptoidLibrary
)
parse_my_tag()
(in
DockMinMover
)
pcsTs1
(in
rosetta
)
probabilty_row()
(in
SequenceProfile
)
parse_my_tag()
(in
DockSetupMover
)
pcsTs1
(in
rosetta.protocols.scoring.methods
)
probB()
(in
PackingScore
)
parse_my_tag()
(in
DockingEnsemblePrepackProtocol
)
pcsTs2
(in
ScoreType
)
Probe
(in
PlaceProbeMover
)
parse_my_tag()
(in
DockingHighRes
)
pcsTs2
(in
rosetta.core.scoring._core_scoring_
)
Probe
(in
StructureOutputMode
)
parse_my_tag()
(in
DockingHighResFilter
)
pcsTs2
(in
rosetta.core.scoring
)
probe_radius()
(in
BumpGrid
)
parse_my_tag()
(in
DockingHighResLegacy
)
pcsTs2
(in
rosetta
)
probe_radius()
(in
TaskAwareSASAFilter
)
parse_my_tag()
(in
DockingInitialPerturbation
)
pcsTs2
(in
rosetta.protocols.scoring.methods
)
probe_radius_for_atom_type()
(in
rosetta.protocols.match._protocols_match_
)
parse_my_tag()
(in
DockingLowRes
)
pcsTs3
(in
ScoreType
)
ProbeRadius
(in
rosetta.protocols.match._protocols_match_
)
parse_my_tag()
(in
DockingLowResEnsemble
)
pcsTs3
(in
rosetta.core.scoring._core_scoring_
)
ProbSortClass
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
parse_my_tag()
(in
DockingLowResFilter
)
pcsTs3
(in
rosetta.core.scoring
)
ProbSortClassAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
parse_my_tag()
(in
DockingPrepackProtocol
)
pcsTs3
(in
rosetta
)
ProbSortClassCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
parse_my_tag()
(in
DockingProtocol
)
pcsTs3
(in
rosetta.protocols.scoring.methods
)
proceed()
(in
Scheduler
)
parse_my_tag()
(in
DockingSlideIntoContact
)
pcsTs4
(in
ScoreType
)
process()
(in
rosetta.basic.options._basic_options_
)
parse_my_tag()
(in
EllipsoidalRandomizationMover
)
pcsTs4
(in
rosetta.core.scoring._core_scoring_
)
process_data()
(in
MatchConstraintFileInfo
)
parse_my_tag()
(in
FaDockingSlideIntoContact
)
pcsTs4
(in
rosetta.core.scoring
)
process_decoy()
(in
AbrelaxApplication
)
parse_my_tag()
(in
InterfaceSidechainMinMover
)
pcsTs4
(in
rosetta
)
process_decoy()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
parse_my_tag()
(in
SidechainMinMover
)
pcsTs4
(in
rosetta.protocols.scoring.methods
)
process_hit()
(in
SecondaryMatchUpstreamResProcessor
)
parse_my_tag()
(in
TemperedDocking
)
pd_reader()
(in
PatchdockTransform
)
process_hit()
(in
SecondaryMatcherToUpstreamResidue
)
parse_my_tag()
(in
MPDockingMover
)
pdb
(in
rosetta.core.io
)
process_hit()
(in
PoseInserter
)
parse_my_tag()
(in
MPDockingSetupMover
)
PDB
(in
rosetta.protocols.sparta._protocols_sparta_
)
process_hit()
(in
UpstreamHitCacher
)
parse_my_tag()
(in
SaneDockingProtocol
)
pdb()
(in
ResPairMotif
)
process_hit()
(in
WriteUpstreamHitKinemage
)
parse_my_tag()
(in
AddAssemblyConstraints
)
pdb2pose()
(in
PDBInfo
)
process_hit()
(in
UpstreamResidueProcessor
)
parse_my_tag()
(in
AssembleLinkerMover
)
pdb_chain()
(in
MutationData
)
process_input_file()
(in
rosetta.protocols.farna._protocols_farna_
)
parse_my_tag()
(in
CombineChainsMover
)
PDB_DReader
(in
rosetta.core.io.pdb._core_io_pdb_
)
process_match()
(in
MatchConsolidator
)
parse_my_tag()
(in
PostDockAssemblyScorer
)
PDB_DReaderAP
(in
rosetta.core.io.pdb._core_io_pdb_
)
process_match()
(in
MatchOutputter
)
parse_my_tag()
(in
BfactorFittingMover
)
PDB_DReaderCAP
(in
rosetta.core.io.pdb._core_io_pdb_
)
process_match()
(in
MatchProcessor
)
parse_my_tag()
(in
DensityMorphingMover
)
PDB_DReaderOptions
(in
rosetta.core.io.pdb._core_io_pdb_
)
process_matches()
(in
Matcher
)
parse_my_tag()
(in
ReportFSC
)
PDB_DReaderOptionsAP
(in
rosetta.core.io.pdb._core_io_pdb_
)
process_motifs()
(in
SymmetricMotifFilter
)
parse_my_tag()
(in
ScaleMapIntensities
)
PDB_DReaderOptionsCAP
(in
rosetta.core.io.pdb._core_io_pdb_
)
process_pdb_header()
(in
EnzConstraintIO
)
parse_my_tag()
(in
SetupForDensityScoringMover
)
pdb_end()
(in
CDRCluster
)
process_score()
(in
DDGBindOptEData
)
parse_my_tag()
(in
ClientMover
)
pdb_info()
(in
Pose
)
process_score()
(in
DDGMutationOptEData
)
parse_my_tag()
(in
CoMTrackerCM
)
pdb_name()
(in
RelativePoseFilter
)
process_score()
(in
NestedEnergyTermDDGMutationOptEData
)
parse_my_tag()
(in
EnvMover
)
pdb_numb()
(in
EnzdesLoopInfo
)
process_score()
(in
NestedEnergyTermPNatAAOptEPositionData
)
parse_my_tag()
(in
ScriptCM
)
pdb_output()
(in
BackboneGridSampler
)
process_score()
(in
PNatRotOptEPositionData
)
parse_my_tag()
(in
EnvLabelSelector
)
pdb_output()
(in
BundleGridSampler
)
process_score()
(in
PNatStructureOptEData
)
parse_my_tag()
(in
MultipleDomainMover
)
pdb_prefix()
(in
BackboneGridSampler
)
processed()
(in
SimulateMPIMessage
)
parse_my_tag()
(in
RNA_DeNovoProtocol
)
pdb_prefix()
(in
BundleGridSampler
)
ProcessorFactory
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_my_tag()
(in
RNA_FragmentMover
)
pdb_start()
(in
CDRCluster
)
ProcessorFactoryAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_my_tag()
(in
RNA_LoopCloser
)
PDBAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
ProcessorFactoryCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
parse_my_tag()
(in
RNA_Minimizer
)
PDBCAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
ProClosureEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
RNA_Relaxer
)
PdbDataFeatures
(in
rosetta.protocols.features._protocols_features_
)
ProClosureEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
AtomAtomPairFeatures
)
PdbDataFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
ProClosureEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
AtomInResidueAtomInResiduePairFeatures
)
PdbDataFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
ProClosureEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
AtomTypesFeatures
)
PdbDataFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
ProClosureEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
BetaTurnDetectionFeatures
)
PdbDataFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
ProClosureEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
ChargeChargeFeatures
)
PdbDataFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
PRODUCT
(in
rosetta.protocols.simple_filters
)
parse_my_tag()
(in
DdGFeatures
)
PDBDumpMover
(in
rosetta.protocols.moves._protocols_moves_
)
PRODUCT
(in
Operation
)
parse_my_tag()
(in
FeaturesReporter
)
PDBDumpMoverAP
(in
rosetta.protocols.moves._protocols_moves_
)
PRODUCT
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
parse_my_tag()
(in
GeometricSolvationFeatures
)
PDBDumpMoverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
product()
(in
rosetta.numeric._numeric_
)
parse_my_tag()
(in
HBondFeatures
)
pdbid()
(in
AnnotatedFragData
)
prof_reset()
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
HBondParameterFeatures
)
pdbid()
(in
FragData
)
prof_row()
(in
SequenceProfile
)
parse_my_tag()
(in
HelixCapFeatures
)
PdbIdChunkFilter
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
prof_row()
(in
LAMBEGO_IO
)
parse_my_tag()
(in
InterfaceFeatures
)
PdbIdChunkFilterAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
prof_row()
(in
TorsionBinIO
)
parse_my_tag()
(in
JobDataFeatures
)
PdbIdChunkFilterCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
prof_show()
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
LoopAnchorFeatures
)
PDBInfo
(in
rosetta.core.pose._core_pose_
)
prof_start_function_body()
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
OrbitalsFeatures
)
PDBInfoAP
(in
rosetta.core.pose._core_pose_
)
prof_stop_function_body()
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
PairFeatures
)
PDBInfoCAP
(in
rosetta.core.pose._core_pose_
)
profile()
(in
VallResidue
)
parse_my_tag()
(in
PdbDataFeatures
)
PDBInputter
(in
rosetta.protocols.inputter._protocols_inputter_
)
profile()
(in
SequenceProfile
)
parse_my_tag()
(in
PoseCommentsFeatures
)
PDBInputterAP
(in
rosetta.protocols.inputter._protocols_inputter_
)
profile()
(in
VallResidue
)
parse_my_tag()
(in
PoseConformationFeatures
)
PDBInputterCAP
(in
rosetta.protocols.inputter._protocols_inputter_
)
profile_mapping()
(in
SequenceProfileConstraint
)
parse_my_tag()
(in
ProteinBackboneAtomAtomPairFeatures
)
PDBJobInputter
(in
rosetta.protocols.jd2._protocols_jd2_
)
profile_struct()
(in
VallResidue
)
parse_my_tag()
(in
ProteinBackboneTorsionAngleFeatures
)
PDBJobInputterAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfilerMover
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ProteinBondGeometryFeatures
)
PDBJobInputterCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfilerMoverAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ProteinRMSDFeatures
)
PDBJobInputterCreator
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfilerMoverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ProteinRMSDNoSuperpositionFeatures
)
PDBJobInputterCreatorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScore
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ProteinResidueConformationFeatures
)
PDBJobInputterCreatorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScoreAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
RadiusOfGyrationFeatures
)
PDBJobOutputter
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScoreBlosum62
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ReportToDB
)
PDBJobOutputterAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScoreBlosum62AP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueBurialFeatures
)
PDBJobOutputterCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScoreBlosum62CAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueConformationFeatures
)
PDBJobOutputterCreator
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScoreCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueFeatures
)
PDBJobOutputterCreatorAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScoreDistWeight
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueGridScoresFeatures
)
PDBJobOutputterCreatorCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
ProfileScoreDistWeightAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueScoresFeatures
)
PDBLandmark
(in
rosetta.protocols.antibody._protocols_antibody_
)
ProfileScoreDistWeightCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueSecondaryStructureFeatures
)
PDBLandmarkAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
ProfileScoreL1
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueTotalScoresFeatures
)
PDBLandmarkCAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
ProfileScoreL1AP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueTypesFeatures
)
pdbname()
(in
DnaInterfacePacker
)
ProfileScoreL1CAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
RotamerBoltzmannWeightFeatures
)
pdbname()
(in
SSMotifFinder
)
ProfileScoreStructL1
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
RotamerFeatures
)
PDBNumbering
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
ProfileScoreStructL1AP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
RotamerRecoveryFeatures
)
PDBNumberingAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
ProfileScoreStructL1CAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
RuntimeFeatures
)
PDBNumberingCAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
ProfileScoreSubMatrix
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
SaltBridgeFeatures
)
PDBOutput
(in
rosetta.protocols.dna._protocols_dna_
)
ProfileScoreSubMatrixAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ScoreFunctionFeatures
)
pdboutput()
(in
DnaInterfacePacker
)
ProfileScoreSubMatrixCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ScoreTypeFeatures
)
PDBOutputAP
(in
rosetta.protocols.dna._protocols_dna_
)
ProfileThis
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
ScreeningFeatures
)
PDBOutputCAP
(in
rosetta.protocols.dna._protocols_dna_
)
ProfileThisAP
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
SecondaryStructureSegmentFeatures
)
PDBOutputter
(in
rosetta.protocols.outputter._protocols_outputter_
)
ProfileThisCAP
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
SmotifFeatures
)
PDBOutputterAP
(in
rosetta.protocols.outputter._protocols_outputter_
)
ProfSimScoringScheme
(in
rosetta.core.sequence._core_sequence_
)
parse_my_tag()
(in
StructureFeatures
)
PDBOutputterCAP
(in
rosetta.protocols.outputter._protocols_outputter_
)
ProfSimScoringSchemeAP
(in
rosetta.core.sequence._core_sequence_
)
parse_my_tag()
(in
StructureScoresFeatures
)
pdbpos()
(in
AnnotatedFragData
)
ProfSimScoringSchemeCAP
(in
rosetta.core.sequence._core_sequence_
)
parse_my_tag()
(in
TaskOperationFeatures
)
pdbpos()
(in
FragData
)
ProfTag
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
TotalScoreFeatures
)
PDBPoseInputStream
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
ProgressBarObserver
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_my_tag()
(in
TrajectoryMapFeatures
)
PDBPoseInputStreamAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
ProgressBarObserverAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_my_tag()
(in
TrajectoryReportToDB
)
PDBPoseInputStreamCAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
ProgressBarObserverCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_my_tag()
(in
UnrecognizedAtomFeatures
)
PDBPoseMap
(in
rosetta.core.pose._core_pose_
)
ProgressBarObserverCreator
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_my_tag()
(in
WaterFeatures
)
PDBPoseMapAP
(in
rosetta.core.pose._core_pose_
)
ProgressBarObserverCreatorAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_my_tag()
(in
ConcurrencyTest
)
PDBPoseMapCAP
(in
rosetta.core.pose._core_pose_
)
ProgressBarObserverCreatorCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
parse_my_tag()
(in
HelixBundleFeatures
)
PDBReloadMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
prohibit_property_i()
(in
BinTransitionData
)
parse_my_tag()
(in
SandwichFeatures
)
PDBReloadMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
prohibit_property_iplus1()
(in
BinTransitionData
)
parse_my_tag()
(in
StrandBundleFeatures
)
PDBReloadMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
prohibit_res_identity_i()
(in
BinTransitionData
)
parse_my_tag()
(in
SetupForFibrilMover
)
PDBReloadMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
prohibit_res_identity_iplus1()
(in
BinTransitionData
)
parse_my_tag()
(in
CalculatorFilter
)
PDBReloadMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
prohibit_single_residue_loops()
(in
LoopFromFileData
)
parse_my_tag()
(in
CombinedFilter
)
PDBReloadMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
prohibit_single_residue_loops()
(in
LoopsFileOptions
)
parse_my_tag()
(in
CompoundFilter
)
PDBSilentStruct
(in
rosetta.core.import_pose._core_import_pose_
)
project_deltaE_for_substitution()
(in
DensePDNode
)
parse_my_tag()
(in
ContingentFilter
)
PDBSilentStructAP
(in
rosetta.core.import_pose._core_import_pose_
)
project_deltaE_for_substitution()
(in
DoubleDensePDNode
)
parse_my_tag()
(in
FalseFilter
)
PDBSilentStructCAP
(in
rosetta.core.import_pose._core_import_pose_
)
project_deltaE_for_substitution()
(in
DoubleLazyNode
)
parse_my_tag()
(in
Filter
)
PDBSilentStructCreator
(in
rosetta.core.import_pose._core_import_pose_
)
project_deltaE_for_substitution()
(in
FASTERNode
)
parse_my_tag()
(in
IfThenFilter
)
PDBSilentStructCreatorAP
(in
rosetta.core.import_pose._core_import_pose_
)
project_deltaE_for_substitution()
(in
LazyNode
)
parse_my_tag()
(in
MoveBeforeFilter
)
PDBSilentStructCreatorCAP
(in
rosetta.core.import_pose._core_import_pose_
)
project_deltaE_for_substitution()
(in
LinearMemNode
)
parse_my_tag()
(in
ReplicateFilter
)
pdbslice()
(in
rosetta.core.pose._core_pose_
)
project_deltaE_for_substitution()
(in
PDNode
)
parse_my_tag()
(in
StochasticFilter
)
PDBTrajectoryRecorder
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
project_deltaE_for_substitution()
(in
SymmLinearMemNode
)
parse_my_tag()
(in
TimeFilter
)
PDBTrajectoryRecorderAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
project_deltaE_for_substitution()
(in
SymmMinimalistNode
)
parse_my_tag()
(in
TrueFilter
)
PDBTrajectoryRecorderCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
project_deltaE_for_substitution()
(in
MinimalistFlexbbNode
)
parse_my_tag()
(in
BluePrintBDR
)
PDBTrajectoryRecorderCreator
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
project_normal()
(in
xyzTriple_Real
)
parse_my_tag()
(in
CircularPermutation
)
PDBTrajectoryRecorderCreatorAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
project_normal()
(in
xyzTriple_SSize
)
parse_my_tag()
(in
MatchResidues
)
PDBTrajectoryRecorderCreatorCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
project_normal()
(in
xyzTriple_Size
)
parse_my_tag()
(in
MatchResiduesMover
)
PDBWriter
(in
rosetta.protocols.match.output._protocols_match_output_
)
project_normal()
(in
xyzTriple_double
)
parse_my_tag()
(in
SheetConstraintsRCG
)
PDBWriterAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
project_normal()
(in
xyzTriple_float
)
parse_my_tag()
(in
CoreDunbrackFilter
)
PDBWriterCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
project_normal()
(in
xyzVector_Real
)
parse_my_tag()
(in
FragQualFilter
)
pddf_score
(in
ScoreType
)
project_normal()
(in
xyzVector_SSize
)
parse_my_tag()
(in
HSSTripletFilter
)
pddf_score
(in
rosetta.core.scoring._core_scoring_
)
project_normal()
(in
xyzVector_Size
)
parse_my_tag()
(in
HelixKinkFilter
)
pddf_score
(in
rosetta.core.scoring
)
project_normal()
(in
xyzVector_double
)
parse_my_tag()
(in
HelixPairingFilter
)
pddf_score
(in
rosetta
)
project_normal()
(in
xyzVector_float
)
parse_my_tag()
(in
InterlockingAromaFilter
)
PDDFEnergy
(in
rosetta.protocols.scoring.methods.saxs._protocols_scoring_methods_saxs_
)
project_parallel()
(in
xyzTriple_Real
)
parse_my_tag()
(in
NcontactsFilter
)
PDDFEnergyAP
(in
rosetta.protocols.scoring.methods.saxs._protocols_scoring_methods_saxs_
)
project_parallel()
(in
xyzTriple_SSize
)
parse_my_tag()
(in
ParallelBetaPairingPreferenceFilter
)
PDDFEnergyCAP
(in
rosetta.protocols.scoring.methods.saxs._protocols_scoring_methods_saxs_
)
project_parallel()
(in
xyzTriple_Size
)
parse_my_tag()
(in
SecondaryStructureCountFilter
)
PDDFEnergyCreator
(in
rosetta.protocols.scoring.methods.saxs._protocols_scoring_methods_saxs_
)
project_parallel()
(in
xyzTriple_double
)
parse_my_tag()
(in
SecondaryStructureFilter
)
PDDFEnergyCreatorAP
(in
rosetta.protocols.scoring.methods.saxs._protocols_scoring_methods_saxs_
)
project_parallel()
(in
xyzTriple_float
)
parse_my_tag()
(in
SecondaryStructureHasResidueFilter
)
PDDFEnergyCreatorCAP
(in
rosetta.protocols.scoring.methods.saxs._protocols_scoring_methods_saxs_
)
project_parallel()
(in
xyzVector_Real
)
parse_my_tag()
(in
SheetTopologyFilter
)
PDDFScoreFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
project_parallel()
(in
xyzVector_SSize
)
parse_my_tag()
(in
SetAACompositionPotential
)
PDDFScoreFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
project_parallel()
(in
xyzVector_Size
)
parse_my_tag()
(in
SetSecStructEnergies
)
PDDFScoreFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
project_parallel()
(in
xyzVector_double
)
parse_my_tag()
(in
FlexPacker
)
PDEdge
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
project_parallel()
(in
xyzVector_float
)
parse_my_tag()
(in
FlexPepDockingAbInitio
)
PDEdgeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzTriple_Real
)
parse_my_tag()
(in
FlexPepDockingLowRes
)
PDEdgeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzTriple_SSize
)
parse_my_tag()
(in
FlexPepDockingProtocol
)
PDInteractionGraph
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzTriple_Size
)
parse_my_tag()
(in
FloppyTailMover
)
PDInteractionGraphAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzTriple_double
)
parse_my_tag()
(in
FlxbbDesign
)
PDInteractionGraphCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzTriple_float
)
parse_my_tag()
(in
FlxbbDesignPack
)
PDNode
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzVector_Real
)
parse_my_tag()
(in
InterlockAroma
)
PDNodeAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzVector_SSize
)
parse_my_tag()
(in
BDR
)
PDNodeCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
projected_normal()
(in
xyzVector_Size
)
parse_my_tag()
(in
VarLengthBuild
)
penalty()
(in
ABEGOEval
)
projected_normal()
(in
xyzVector_double
)
parse_my_tag()
(in
RemodelConstraintGenerator
)
penalty()
(in
MembraneEmbed
)
projected_normal()
(in
xyzVector_float
)
parse_my_tag()
(in
NonlocalFrags
)
PEPTIDE
(in
rosetta.protocols.make_rot_lib
)
projected_parallel()
(in
xyzTriple_Real
)
parse_my_tag()
(in
TorsionFragmentMover
)
PEPTIDE
(in
MakeRotLibPolymerType
)
projected_parallel()
(in
xyzTriple_SSize
)
parse_my_tag()
(in
GeneralizedKIC
)
PEPTIDE
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
projected_parallel()
(in
xyzTriple_Size
)
parse_my_tag()
(in
AnchoredGraftMover
)
peptide_bond
(in
ScoreType
)
projected_parallel()
(in
xyzTriple_double
)
parse_my_tag()
(in
CCDEndsGraftMover
)
peptide_bond
(in
rosetta.core.scoring._core_scoring_
)
projected_parallel()
(in
xyzTriple_float
)
parse_my_tag()
(in
GraftMoverBase
)
peptide_bond
(in
rosetta.core.scoring
)
projected_parallel()
(in
xyzVector_Real
)
parse_my_tag()
(in
DeleteRegionMover
)
peptide_bond
(in
rosetta
)
projected_parallel()
(in
xyzVector_SSize
)
parse_my_tag()
(in
InsertPoseIntoPoseMover
)
peptide_chain()
(in
FlexPepDockingFlags
)
projected_parallel()
(in
xyzVector_Size
)
parse_my_tag()
(in
KeepRegionMover
)
peptide_entry()
(in
PeptideDeriverBasicStreamOutputter
)
projected_parallel()
(in
xyzVector_double
)
parse_my_tag()
(in
ReplaceRegionMover
)
peptide_entry()
(in
PeptideDeriverMarkdownStreamOutputter
)
projected_parallel()
(in
xyzVector_float
)
parse_my_tag()
(in
BackboneGridSampler
)
peptide_entry()
(in
PeptideDeriverOutputter
)
projection_matrix()
(in
rosetta.numeric._numeric_
)
parse_my_tag()
(in
BundleGridSampler
)
peptide_entry()
(in
PeptideDeriverOutputterContainer
)
projperp()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
parse_my_tag()
(in
FitSimpleHelix
)
peptide_entry()
(in
PeptideDeriverPoseOutputter
)
ProlineFixMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
MakeBundle
)
peptide_first_res()
(in
FlexPepDockingFlags
)
ProlineFixMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
MakeBundleHelix
)
peptide_last_res()
(in
FlexPepDockingFlags
)
ProlineFixMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
PerturbBundle
)
peptide_length()
(in
PeptideDeriverBasicStreamOutputter
)
ProlinePhiScore
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
PerturbBundleHelix
)
peptide_length()
(in
PeptideDeriverMarkdownStreamOutputter
)
ProlinePhiScoreAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
PlaceSurfaceProbe
)
peptide_length()
(in
PeptideDeriverOutputter
)
ProlinePhiScoreCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
BackboneTorsionPerturbation
)
peptide_length()
(in
PeptideDeriverOutputterContainer
)
promote_sameresidue_child_of_jump_atom()
(in
rosetta.core.conformation._core_conformation_
)
parse_my_tag()
(in
BackboneTorsionSampler
)
peptide_length()
(in
PeptideDeriverPoseOutputter
)
promote_sameresidue_nonjump_child()
(in
AtomTree
)
parse_my_tag()
(in
CartesianHybridize
)
peptide_nres()
(in
FlexPepDockingFlags
)
propagate_best_from_previous_generation()
(in
GeneticAlgorithm
)
parse_my_tag()
(in
CartesianSampler
)
peptide_stub_mover_initialized()
(in
BackboneGridSampler
)
propagate_best_from_previous_generation()
(in
GeneticAlgorithmBase
)
parse_my_tag()
(in
ChunkTrialMover
)
PeptideBondedEnergyContainer
(in
rosetta.core.scoring._core_scoring_
)
propeller()
(in
DNABasepair
)
parse_my_tag()
(in
DomainAssembly
)
PeptideBondedEnergyContainerAP
(in
rosetta.core.scoring._core_scoring_
)
Properties
(in
Element
)
parse_my_tag()
(in
FoldTreeHybridize
)
PeptideBondedEnergyContainerCAP
(in
rosetta.core.scoring._core_scoring_
)
Properties
(in
GasteigerAtomTypeData
)
parse_my_tag()
(in
HybridizeProtocol
)
PeptideBondedNeighborConstIterator
(in
rosetta.core.scoring._core_scoring_
)
properties()
(in
ResidueType
)
parse_my_tag()
(in
InsertChunkMover
)
PeptideBondedNeighborConstIteratorAP
(in
rosetta.core.scoring._core_scoring_
)
property()
(in
ResidueHasProperty
)
parse_my_tag()
(in
MRMover
)
PeptideBondedNeighborConstIteratorCAP
(in
rosetta.core.scoring._core_scoring_
)
property()
(in
ResidueLacksProperty
)
parse_my_tag()
(in
WeightedFragmentSmoothTrialMover
)
PeptideBondedNeighborIterator
(in
rosetta.core.scoring._core_scoring_
)
property()
(in
ResiduePDBInfoHasLabel
)
parse_my_tag()
(in
WeightedFragmentTrialMover
)
PeptideBondedNeighborIteratorAP
(in
rosetta.core.scoring._core_scoring_
)
property()
(in
ResiduePDBInfoLacksLabel
)
parse_my_tag()
(in
IdealizeMover
)
PeptideBondedNeighborIteratorCAP
(in
rosetta.core.scoring._core_scoring_
)
proposal_density()
(in
SidechainMover
)
parse_my_tag()
(in
FragmentLookupFilter
)
PeptideBondEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
proposal_density_ratio()
(in
StepWiseMasterMover
)
parse_my_tag()
(in
BalancedKicMover
)
PeptideBondEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
proposal_probability()
(in
StepWiseMoveSelector
)
parse_my_tag()
(in
KicMover
)
PeptideBondEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
proposed_one_body_energy()
(in
SimpleNode
)
parse_my_tag()
(in
AddHydrogen
)
PeptideBondEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
proposed_since_last_batch()
(in
ArchiveBase
)
parse_my_tag()
(in
AddHydrogens
)
PeptideBondEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
ProQ
(in
rosetta
)
parse_my_tag()
(in
AtomCountFilter
)
PeptideBondEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
ProQ
(in
rosetta.core.scoring
)
parse_my_tag()
(in
ChainExistsFilter
)
PeptideDeriverBasicStreamOutputter
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
CompleteConnectionsFilter
)
PeptideDeriverBasicStreamOutputterAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ
(in
ScoreType
)
parse_my_tag()
(in
CompoundTranslate
)
PeptideDeriverBasicStreamOutputterCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ_Energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
ComputeLigandRDF
)
PeptideDeriverEntryType
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ_EnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
FinalMinimizer
)
PeptideDeriverFilter
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ_EnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
GrowLigand
)
PeptideDeriverFilterAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ_EnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
HBondAcceptorFilter
)
PeptideDeriverFilterCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ_EnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
HBondDonorFilter
)
PeptideDeriverFilterCreator
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQ_EnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
HeavyAtomFilter
)
PeptideDeriverFilterCreatorAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQM
(in
rosetta
)
parse_my_tag()
(in
HighResDocker
)
PeptideDeriverFilterCreatorCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQM
(in
rosetta.core.scoring
)
parse_my_tag()
(in
InterfaceBuilder
)
PeptideDeriverMarkdownStreamOutputter
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQM
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
InterfaceScoreCalculator
)
PeptideDeriverMarkdownStreamOutputterAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQM
(in
ScoreType
)
parse_my_tag()
(in
LigandArea
)
PeptideDeriverMarkdownStreamOutputterCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQPotential
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
LigandDesign
)
PeptideDeriverOutputter
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQPotentialAP
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
MinimizeBackbone
)
PeptideDeriverOutputterAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProQPotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
MinimizeLigand
)
PeptideDeriverOutputterCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProtectedConformation
(in
rosetta.protocols.environment._protocols_environment_
)
parse_my_tag()
(in
MolarMassFilter
)
PeptideDeriverOutputterContainer
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProtectedConformationAP
(in
rosetta.protocols.environment._protocols_environment_
)
parse_my_tag()
(in
MolecularMassFilter
)
PeptideDeriverOutputterContainerAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProtectedConformationCAP
(in
rosetta.protocols.environment._protocols_environment_
)
parse_my_tag()
(in
MoveMapBuilder
)
PeptideDeriverOutputterContainerCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
PROTEIN
(in
rosetta
)
parse_my_tag()
(in
RandomConformerMover
)
PeptideDeriverPoseOutputter
(in
rosetta.protocols.analysis._protocols_analysis_
)
PROTEIN
(in
rosetta.core.chemical
)
parse_my_tag()
(in
RandomConformers
)
PeptideDeriverPoseOutputterAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
PROTEIN
(in
rosetta.core.chemical._core_chemical_
)
parse_my_tag()
(in
RigidSearchMover
)
PeptideDeriverPoseOutputterCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
PROTEIN
(in
ResidueProperty
)
parse_my_tag()
(in
Rotate
)
PeptideDeriverReportFormat
(in
rosetta.protocols.analysis._protocols_analysis_
)
PROTEIN
(in
ElectrostaticpotentialGrid
)
parse_my_tag()
(in
Rotates
)
PeptideStapleDesignMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
PROTEIN
(in
PtType
)
parse_my_tag()
(in
SlideTogether
)
PeptideStapleDesignMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
protein
(in
rosetta.protocols.stepwise.legacy.modeler
)
parse_my_tag()
(in
StartFrom
)
PeptideStapleDesignMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
protein
(in
rosetta.protocols.stepwise.modeler
)
parse_my_tag()
(in
TetherLigand
)
PeptideStapleDesignMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
protein
(in
rosetta.protocols.stepwise.sampler
)
parse_my_tag()
(in
Transform
)
PeptideStapleDesignMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
PROTEIN_ATR_REP
(in
rosetta.protocols.stepwise.screener
)
parse_my_tag()
(in
Translate
)
PeptideStapleDesignMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
PROTEIN_ATR_REP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
UnconstrainedTorsionsMover
)
PeptideStapleMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
PROTEIN_ATR_REP
(in
StepWiseScreenerType
)
parse_my_tag()
(in
WriteLigandMolFile
)
PeptideStapleMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
PROTEIN_BETA_ANTIPARALLEL
(in
rosetta.protocols.stepwise.sampler
)
parse_my_tag()
(in
RDFBase
)
PeptideStapleMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
PROTEIN_BETA_ANTIPARALLEL
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
parse_my_tag()
(in
RDFBinaryHbondFunction
)
PeptideStubMover
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
PROTEIN_BETA_ANTIPARALLEL
(in
StepWiseSamplerType
)
parse_my_tag()
(in
RDFBinaryOrbitalFunction
)
PeptideStubMoverAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
PROTEIN_CCD_CLOSURE
(in
rosetta.protocols.stepwise.screener
)
parse_my_tag()
(in
RDFChargeFunction
)
PeptideStubMoverCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
PROTEIN_CCD_CLOSURE
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
RDFElecFunction
)
PeptideStubMoverCreator
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
PROTEIN_CCD_CLOSURE
(in
StepWiseScreenerType
)
parse_my_tag()
(in
RDFEtableFunction
)
PeptideStubMoverCreatorAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
protein_dna_motif()
(in
LigandMotifSearch
)
parse_my_tag()
(in
RDFHbondFunction
)
PeptideStubMoverCreatorCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
protein_dna_motif()
(in
MotifSearch
)
parse_my_tag()
(in
RDFOrbitalFunction
)
PEPTOID
(in
rosetta
)
protein_DNA_motif_build_positions_JA()
(in
LigandMotifSearch
)
parse_my_tag()
(in
LoopBuildMover
)
PEPTOID
(in
rosetta.core.chemical
)
protein_DNA_motif_build_positions_JA()
(in
MotifSearch
)
parse_my_tag()
(in
LoopmodelWrapper
)
PEPTOID
(in
rosetta.core.chemical._core_chemical_
)
protein_DNA_motif_target_positions_JA()
(in
LigandMotifSearch
)
parse_my_tag()
(in
LoopBuilder
)
PEPTOID
(in
ResidueProperty
)
protein_DNA_motif_target_positions_JA()
(in
MotifSearch
)
parse_my_tag()
(in
LoopModeler
)
PEPTOID
(in
rosetta.protocols.make_rot_lib
)
PROTEIN_FRAGMENT
(in
rosetta.protocols.stepwise.sampler
)
parse_my_tag()
(in
LoopMover
)
PEPTOID
(in
MakeRotLibPolymerType
)
PROTEIN_FRAGMENT
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
parse_my_tag()
(in
LoopProtocol
)
PEPTOID
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
PROTEIN_FRAGMENT
(in
StepWiseSamplerType
)
parse_my_tag()
(in
MinimizationRefiner
)
per_constraint_build_points()
(in
Matcher
)
protein_interface_design
(in
rosetta.protocols
)
parse_my_tag()
(in
RepackingRefiner
)
period()
(in
BBDepCartBondedParameters
)
protein_interface_design()
(in
SeqprofConsensusOperation
)
parse_my_tag()
(in
RotamerTrialsRefiner
)
period()
(in
BBIndepCartBondedParameters
)
PROTEIN_MAIN_CHAIN
(in
rosetta.protocols.stepwise.sampler
)
parse_my_tag()
(in
LegacyKicSampler
)
period()
(in
CartBondedParameters
)
PROTEIN_MAIN_CHAIN
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
parse_my_tag()
(in
AcceptanceCheck
)
periodic_range
(in
rosetta.numeric.interpolation
)
PROTEIN_MAIN_CHAIN
(in
StepWiseSamplerType
)
parse_my_tag()
(in
LoopFilter
)
periodic_range()
(in
rosetta.basic._basic_
)
protein_neighbors()
(in
DnaInterfaceFinder
)
parse_my_tag()
(in
LoopMoverGroup
)
periodic_value
(in
rosetta.numeric.interpolation.periodic_range
)
protein_positions()
(in
LigandMotifSearch
)
parse_my_tag()
(in
PrepareForCentroid
)
PeriodicBoundFunc
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
protein_positions()
(in
MotifSearch
)
parse_my_tag()
(in
PrepareForFullatom
)
PeriodicBoundFuncAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
protein_prepack()
(in
StepWiseMonteCarloOptions
)
parse_my_tag()
(in
FastGapMover
)
PeriodicBoundFuncCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
protein_torsion_end
(in
ProteinTorsion
)
parse_my_tag()
(in
LoopHashDiversifier
)
PeriodicBoxMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
protein_torsion_end
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
LoopHashLibrary
)
PeriodicBoxMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
protein_torsion_end
(in
rosetta.core.scoring
)
parse_my_tag()
(in
LoopHashLibraryOptions
)
PeriodicBoxMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
protein_torsion_end
(in
rosetta
)
parse_my_tag()
(in
LoopHashMoverWrapper
)
PeriodicBoxMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
ProteinAtrRepChecker
(in
rosetta.protocols.stepwise.modeler.protein.checker._protocols_stepwise_modeler_protein_checker_
)
parse_my_tag()
(in
LoopHashRelaxProtocol
)
PeriodicBoxMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
ProteinAtrRepCheckerAP
(in
rosetta.protocols.stepwise.modeler.protein.checker._protocols_stepwise_modeler_protein_checker_
)
parse_my_tag()
(in
Mover_LoopHashRefine
)
PeriodicBoxMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
ProteinAtrRepCheckerCAP
(in
rosetta.protocols.stepwise.modeler.protein.checker._protocols_stepwise_modeler_protein_checker_
)
parse_my_tag()
(in
FoldTreeFromLoops
)
PeriodicFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
ProteinAtrRepScreenerAP
(in
rosetta.protocols.stepwise.legacy.screener._protocols_stepwise_legacy_screener_'
)
parse_my_tag()
(in
LoopsFileOptions
)
PeriodicFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
ProteinAtrRepScreenerCAP
(in
rosetta.protocols.stepwise.legacy.screener._protocols_stepwise_legacy_screener_'
)
parse_my_tag()
(in
CCDLoopClosureMover
)
PeriodicFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
ProteinBackboneAtomAtomPairFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
FASelectSlidingWindowLoopClosure
)
periodicity()
(in
TorsionFourierComponent
)
ProteinBackboneAtomAtomPairFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
RamaCheck1B
)
periodicity()
(in
GeomSampleInfo
)
ProteinBackboneAtomAtomPairFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
RamaCheck2B
)
permitted_overlap()
(in
MatcherTask
)
ProteinBackboneAtomAtomPairFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
RamaCheckBase
)
permutate_n_vv_of_pairs()
(in
MotifGraftMover
)
ProteinBackboneAtomAtomPairFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
SlidingWindowLoopClosure
)
Permute
(in
rosetta.basic.sampling.orientations._basic_sampling_orientations_
)
ProteinBackboneAtomAtomPairFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
WidthFirstSlidingWindowLoopClosure
)
PermuteAP
(in
rosetta.basic.sampling.orientations._basic_sampling_orientations_
)
ProteinBackboneBuildPoint
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
KinematicMover
)
PermuteCAP
(in
rosetta.basic.sampling.orientations._basic_sampling_orientations_
)
ProteinBackboneBuildPointAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
KinematicWrapper
)
PerNativeRRReporterHuman
(in
rosetta.protocols.rotamer_recovery._protocols_rotamer_recovery_
)
ProteinBackboneBuildPointCAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
LoopCM
)
PerNativeRRReporterHumanAP
(in
rosetta.protocols.rotamer_recovery._protocols_rotamer_recovery_
)
ProteinBackboneTorsionAngleFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
LoopMover_Refine_CCD
)
PerNativeRRReporterHumanCAP
(in
rosetta.protocols.rotamer_recovery._protocols_rotamer_recovery_
)
ProteinBackboneTorsionAngleFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
LoopRefineInnerCycle
)
PerResidueInterfaceData
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProteinBackboneTorsionAngleFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
LoopRefineInnerCycleContainer
)
PerResidueInterfaceDataAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProteinBackboneTorsionAngleFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
RepackTrial
)
PerResidueInterfaceDataCAP
(in
rosetta.protocols.analysis._protocols_analysis_
)
ProteinBackboneTorsionAngleFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
ShearMinCCDTrial
)
PerSphereAccumulator
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
ProteinBackboneTorsionAngleFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
SmallMinCCDTrial
)
PerSphereAccumulatorAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
ProteinBetaAntiParallelStepWiseSampler
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
LoopsDatabaseDefiner
)
PerSphereAccumulatorCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
ProteinBetaAntiParallelStepWiseSamplerAP
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
LoopsDefiner
)
PertType
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
ProteinBetaAntiParallelStepWiseSamplerCAP
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
LoopsExplicitDefiner
)
perturb
(in
rosetta.protocols.loops.loop_mover
)
ProteinBondGeometryFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
LoopsFileDefiner
)
perturb()
(in
BackboneTorsionPerturbation
)
ProteinBondGeometryFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MakeRotLibMover
)
perturb()
(in
BackboneTorsionSampler
)
ProteinBondGeometryFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MatcherMover
)
perturb()
(in
Perturber
)
ProteinBondGeometryFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
ClashCheckFilter
)
perturb()
(in
LoopMoverFromCommandLine
)
ProteinBondGeometryFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
ExtractSubposeMover
)
perturb()
(in
LoopRemodel
)
ProteinBondGeometryFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
GetRBDOFValues
)
perturb_anchor()
(in
AnchoredDesignMover
)
ProteinCCD_ClosureScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
InterfacePackingFilter
)
perturb_angles()
(in
ClosureProblem
)
ProteinCCD_ClosureScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
MatDesGreedyOptMutationMover
)
perturb_backbone_by_bins
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
ProteinCCD_ClosureScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
parse_my_tag()
(in
OligomericAverageDegreeFilter
)
perturb_backbone_by_bins
(in
perturber_effect
)
ProteinCore
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
SchemePlaceMotifsMover
)
perturb_backbone_by_bins
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
ProteinCoreAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
SymDofMover
)
perturb_backbone_for_test()
(in
rosetta.protocols.grafting._protocols_grafting_
)
ProteinCoreCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
SymUnsatHbondFilter
)
perturb_beta_residue()
(in
TorsionSamplingKinematicPerturber
)
ProteinCoreFilterCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
CartesianMD
)
perturb_c_n()
(in
ClosureProblem
)
ProteinCoreFilterCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
MDBase
)
perturb_c_n_ca()
(in
ClosureProblem
)
ProteinCoreFilterCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
MedalExchangeMover
)
perturb_ca_c()
(in
ClosureProblem
)
ProteinFragmentStepWiseSampler
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
MedalMover
)
perturb_ca_c_n()
(in
ClosureProblem
)
ProteinFragmentStepWiseSamplerAP
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
AddMPLigandMover
)
perturb_chain()
(in
BaseTabooPerturber
)
ProteinFragmentStepWiseSamplerCAP
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
AddMembraneMover
)
perturb_chain()
(in
KinematicPerturber
)
ProteinInterfaceDesignOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
FlipMover
)
perturb_chain()
(in
NeighborDependentTorsionSamplingKinematicPerturber
)
ProteinInterfaceDesignOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
MembranePositionFromTopologyMover
)
perturb_chain()
(in
TorsionRestrictedKinematicPerturber
)
ProteinInterfaceDesignOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
RandomPositionRotationMover
)
perturb_chain()
(in
TorsionSamplingKinematicPerturber
)
ProteinInterfaceDesignOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
RandomPositionTranslationMover
)
perturb_chain()
(in
TorsionSweepingKinematicPerturber
)
ProteinInterfaceDesignOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
RotationMover
)
perturb_chain()
(in
VicinitySamplingKinematicPerturber
)
ProteinInterfaceDesignOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
parse_my_tag()
(in
SetMembraneCenterMover
)
perturb_dBR_and_relax()
(in
FASTERInteractionGraph
)
ProteinInterfaceMultiStateDesignMover
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_my_tag()
(in
SetMembraneNormalMover
)
perturb_dihedral
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
ProteinInterfaceMultiStateDesignMoverAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_my_tag()
(in
SetMembranePositionMover
)
perturb_dihedral
(in
perturber_effect
)
ProteinInterfaceMultiStateDesignMoverCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_my_tag()
(in
TransformIntoMembraneMover
)
perturb_dihedral
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
ProteinInterfaceMultiStateDesignMoverCreator
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_my_tag()
(in
TranslationMover
)
perturb_dihedral_bbg
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
ProteinInterfaceMultiStateDesignMoverCreatorAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_my_tag()
(in
TranslationRotationMover
)
perturb_dihedral_bbg
(in
perturber_effect
)
ProteinInterfaceMultiStateDesignMoverCreatorCAP
(in
rosetta.protocols.protein_interface_design.movers._protocols_protein_interface_design_movers_
)
parse_my_tag()
(in
LipoFileOptions
)
perturb_dihedral_bbg
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
ProteinMainChainStepWiseSampler
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
SpanFileOptions
)
perturb_lengths()
(in
ClosureProblem
)
ProteinMainChainStepWiseSamplerAP
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
SymmetricAddMembraneMover
)
perturb_molecule_move()
(in
PeriodicBoxMover
)
ProteinMainChainStepWiseSamplerCAP
(in
rosetta.protocols.stepwise.sampler.protein._protocols_stepwise_sampler_protein_
)
parse_my_tag()
(in
VisualizeEmbeddingMover
)
perturb_n_ca()
(in
ClosureProblem
)
ProteinResidueConformationFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
VisualizeMembraneMover
)
perturb_n_ca_c()
(in
ClosureProblem
)
ProteinResidueConformationFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
ZincHeterodimerMover
)
perturb_omega()
(in
ClosureProblem
)
ProteinResidueConformationFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MotifGraftMover
)
perturb_phi()
(in
ClosureProblem
)
ProteinResidueConformationFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MotifDnaPacker
)
perturb_psi()
(in
ClosureProblem
)
ProteinResidueConformationFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
CompositionMover
)
perturb_sBR_and_relax()
(in
FASTERInteractionGraph
)
ProteinResidueConformationFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
CycleMover
)
perturb_subset()
(in
BondAnglePerturber
)
ProteinRMSDFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
CyclicMover
)
perturb_subset()
(in
FragmentPerturber
)
ProteinRMSDFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
DsspMover
)
perturb_subset()
(in
IdealizeNonPhiPsi
)
ProteinRMSDFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
FilterMover
)
perturb_subset()
(in
LogFilePerturber
)
ProteinRMSDFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
FilterReporterMover
)
perturb_subset()
(in
OmegaPerturber
)
ProteinRMSDFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
IfMover
)
perturb_subset()
(in
Perturber
)
ProteinRMSDFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
IteratedConvergenceMover
)
perturb_subset()
(in
PerturberSet
)
ProteinRMSDNoSuperpositionFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
JumpOutMover
)
perturb_subset()
(in
Rama2bPerturber
)
ProteinRMSDNoSuperpositionFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MCShowMover
)
perturb_subset()
(in
RamaPerturber
)
ProteinRMSDNoSuperpositionFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MonteCarloUtil
)
perturb_subset()
(in
UniformPerturber
)
ProteinRMSDNoSuperpositionFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MoveMapMover
)
perturb_subset()
(in
VicinityPerturber
)
ProteinRMSDNoSuperpositionFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
Mover
)
perturb_subset()
(in
WalkingBondAnglePerturber
)
ProteinRMSDNoSuperpositionFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
MoverApplyingMover
)
perturb_subset()
(in
WalkingPerturber
)
ProteinSCSampler
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
MoverContainer
)
perturb_subset_with_balance()
(in
BondAnglePerturber
)
ProteinSCSamplerAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
MoverForPoseList
)
perturb_subset_with_balance()
(in
FragmentPerturber
)
ProteinSCSamplerCAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
NullMover
)
perturb_subset_with_balance()
(in
IdealizeNonPhiPsi
)
ProteinSilentReport
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
PDBDumpMover
)
perturb_subset_with_balance()
(in
LogFilePerturber
)
ProteinSilentReportAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
ProfilerMover
)
perturb_subset_with_balance()
(in
OmegaPerturber
)
ProteinSilentReportCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
PyMolMover
)
perturb_subset_with_balance()
(in
Perturber
)
ProteinSilentStruct_SinglePrecCreator
(in
rosetta.core.io.silent._core_io_silent_
)
parse_my_tag()
(in
RampingMover
)
perturb_subset_with_balance()
(in
PerturberSet
)
ProteinSilentStruct_SinglePrecCreatorAP
(in
rosetta.core.io.silent._core_io_silent_
)
parse_my_tag()
(in
RandomMover
)
perturb_subset_with_balance()
(in
Rama2bPerturber
)
ProteinSilentStruct_SinglePrecCreatorCAP
(in
rosetta.core.io.silent._core_io_silent_
)
parse_my_tag()
(in
RepeatMover
)
perturb_subset_with_balance()
(in
RamaPerturber
)
ProteinSilentStructCreator
(in
rosetta.core.io.silent._core_io_silent_
)
parse_my_tag()
(in
SequenceMover
)
perturb_subset_with_balance()
(in
UniformPerturber
)
ProteinSilentStructCreatorAP
(in
rosetta.core.io.silent._core_io_silent_
)
parse_my_tag()
(in
StructureRestrictor
)
perturb_subset_with_balance()
(in
VicinityPerturber
)
ProteinSilentStructCreatorCAP
(in
rosetta.core.io.silent._core_io_silent_
)
parse_my_tag()
(in
TrialMover
)
perturb_subset_with_balance()
(in
WalkingBondAnglePerturber
)
ProteinTorsion
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
VectorPoseMover
)
perturb_subset_with_balance()
(in
WalkingPerturber
)
ProteinUpstreamBuilder
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
WhileMover
)
perturb_torsions()
(in
ClosureProblem
)
ProteinUpstreamBuilderAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
StructAvrgMover
)
perturb_weights()
(in
ScoreFunction
)
ProteinUpstreamBuilderCAP
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
parse_my_tag()
(in
NcbbDockDesignProtocol
)
perturb_with_balance()
(in
Perturber
)
proto_h4
(in
CDRNameEnum
)
parse_my_tag()
(in
OopCreatorMover
)
perturbation_magnitude()
(in
PerturbBundleOptions
)
proto_h4
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_my_tag()
(in
OopDockDesignProtocol
)
perturbation_type()
(in
PerturbBundleOptions
)
proto_h4
(in
rosetta.protocols.antibody
)
parse_my_tag()
(in
CartesianNormalModeMover
)
PerturbBundle
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
proto_l4
(in
CDRNameEnum
)
parse_my_tag()
(in
NormalModeMinimizer
)
PerturbBundleAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
proto_l4
(in
rosetta.protocols.antibody._protocols_antibody_
)
parse_my_tag()
(in
NormalModeRelaxMover
)
PerturbBundleCAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
proto_l4
(in
rosetta.protocols.antibody
)
parse_my_tag()
(in
TorsionNormalModeMover
)
PerturbBundleCreator
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
Protocol
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_my_tag()
(in
SetupPoissonBoltzmannPotential
)
PerturbBundleCreatorAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
ProtocolAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_my_tag()
(in
AtomicContactCountFilter
)
PerturbBundleCreatorCAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
ProtocolCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
parse_my_tag()
(in
AverageDegreeFilter
)
PerturbBundleHelix
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
ProtocolFeatures
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
BindingStrainFilter
)
PerturbBundleHelixAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
ProtocolFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
BoltzmannFilter
)
PerturbBundleHelixCAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
ProtocolFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
parse_my_tag()
(in
ClashWithTargetFilter
)
PerturbBundleHelixCreator
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
protocols
(in
rosetta
)
parse_my_tag()
(in
DesignableResiduesFilter
)
PerturbBundleHelixCreatorAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
proton_chi_2_chi()
(in
ResidueType
)
parse_my_tag()
(in
DisulfideFilter
)
PerturbBundleHelixCreatorCAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
proton_chi_extra_samples()
(in
ResidueType
)
parse_my_tag()
(in
FNatFilter
)
PerturbBundleOptions
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
proton_chi_samples()
(in
ResidueType
)
parse_my_tag()
(in
FilterScanFilter
)
PerturbBundleOptionsAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
PROTONATED
(in
rosetta
)
parse_my_tag()
(in
HbondsToAtomFilter
)
PerturbBundleOptionsCAP
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
PROTONATED
(in
rosetta.core.chemical
)
parse_my_tag()
(in
HbondsToResidueFilter
)
PerturbByBins
(in
rosetta.protocols.simple_moves.bin_transitions._protocols_simple_moves_bin_transitions_
)
PROTONATED
(in
rosetta.core.chemical._core_chemical_
)
parse_my_tag()
(in
IRmsdFilter
)
PerturbByBinsAP
(in
rosetta.protocols.simple_moves.bin_transitions._protocols_simple_moves_bin_transitions_
)
PROTONATED
(in
VariantType
)
parse_my_tag()
(in
InterfaceHolesFilter
)
PerturbByBinsCAP
(in
rosetta.protocols.simple_moves.bin_transitions._protocols_simple_moves_bin_transitions_
)
PROTONATED_H1_ADENOSINE
(in
rosetta
)
parse_my_tag()
(in
LRmsdFilter
)
PerturbByBinsCreator
(in
rosetta.protocols.simple_moves.bin_transitions._protocols_simple_moves_bin_transitions_
)
PROTONATED_H1_ADENOSINE
(in
rosetta.core.chemical
)
parse_my_tag()
(in
RelativeSegmentFilter
)
PerturbByBinsCreatorAP
(in
rosetta.protocols.simple_moves.bin_transitions._protocols_simple_moves_bin_transitions_
)
PROTONATED_H1_ADENOSINE
(in
rosetta.core.chemical._core_chemical_
)
parse_my_tag()
(in
RmsdFilter
)
PerturbByBinsCreatorCAP
(in
rosetta.protocols.simple_moves.bin_transitions._protocols_simple_moves_bin_transitions_
)
PROTONATED_H1_ADENOSINE
(in
VariantType
)
parse_my_tag()
(in
RmsdSimpleFilter
)
PerturbChiSidechainMover
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
protonated_H1_adenosine_list()
(in
StepWiseWorkingParameters
)
parse_my_tag()
(in
SSamountFilter
)
PerturbChiSidechainMoverAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
provide_stored_derivatives()
(in
ArmijoLineMinimization
)
parse_my_tag()
(in
SequenceRecoveryFilter
)
PerturbChiSidechainMoverCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
provide_stored_derivatives()
(in
BrentLineMinimization
)
parse_my_tag()
(in
SpecificResiduesNearInterfaceFilter
)
PerturbChiSidechainMoverCreator
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
provide_stored_derivatives()
(in
LineMinimizationAlgorithm
)
parse_my_tag()
(in
StubScoreFilter
)
PerturbChiSidechainMoverCreatorAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
provide_stored_derivatives()
(in
StrongWolfeLineMinimization
)
parse_my_tag()
(in
StubScoreLoopsFilter
)
PerturbChiSidechainMoverCreatorCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
prune_cavity_balls()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
Torsion
)
perturber
(in
rosetta.protocols.generalized_kinematic_closure
)
prune_hidden_cavity_balls()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
parse_my_tag()
(in
AddChainBreak
)
Perturber
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
prune_small_bins()
(in
XformScore
)
parse_my_tag()
(in
AddSidechainConstraintsToHotspots
)
perturber()
(in
DockingProtocol
)
psc_compare()
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
parse_my_tag()
(in
BestHotspotCstMover
)
perturber()
(in
KinematicMover
)
PSEUDO_PROTEIN
(in
ElectrostaticpotentialGrid
)
parse_my_tag()
(in
BuildAlaPose
)
perturber_effect
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
PSEUDO_PROTEIN
(in
PtType
)
parse_my_tag()
(in
DesignMinimizeHbonds
)
perturber_exhausted()
(in
KinematicPerturber
)
PseudoBond
(in
rosetta.core.conformation._core_conformation_
)
parse_my_tag()
(in
DisulfideMover
)
perturber_exhausted()
(in
NeighborDependentTorsionSamplingKinematicPerturber
)
PseudoBondAP
(in
rosetta.core.conformation._core_conformation_
)
parse_my_tag()
(in
DockAndRetrieveSidechains
)
perturber_exhausted()
(in
TorsionRestrictedKinematicPerturber
)
PseudoBondCAP
(in
rosetta.core.conformation._core_conformation_
)
parse_my_tag()
(in
DockWithHotspotMover
)
perturber_exhausted()
(in
TorsionSamplingKinematicPerturber
)
PseudoBondCollection
(in
rosetta.core.conformation._core_conformation_
)
parse_my_tag()
(in
FavorNativeResiduePreCycle
)
perturber_exhausted()
(in
TorsionSweepingKinematicPerturber
)
PseudoBondCollectionAP
(in
rosetta.core.conformation._core_conformation_
)
parse_my_tag()
(in
FavorNonNativeResiduePreCycle
)
perturber_exhausted()
(in
VicinitySamplingKinematicPerturber
)
PseudoBondCollectionCAP
(in
rosetta.core.conformation._core_conformation_
)
parse_my_tag()
(in
HotspotDisjointedFoldTreeMover
)
perturber_type()
(in
KinematicPerturber
)
PseudoBondOrder
(in
rosetta
)
parse_my_tag()
(in
HotspotHasherMover
)
perturber_type()
(in
NeighborDependentTabooSamplingKinematicPerturber
)
PseudoBondOrder
(in
rosetta.core.chemical
)
parse_my_tag()
(in
InterfaceRecapitulationMover
)
perturber_type()
(in
NeighborDependentTorsionSamplingKinematicPerturber
)
PseudoBondOrder
(in
BondOrder
)
parse_my_tag()
(in
LoopFinder
)
perturber_type()
(in
TabooSamplingKinematicPerturber
)
PseudoBondOrder
(in
rosetta.core.chemical._core_chemical_
)
parse_my_tag()
(in
LoopLengthChange
)
perturber_type()
(in
TorsionRestrictedKinematicPerturber
)
pseudobonds()
(in
Residue
)
parse_my_tag()
(in
LoopMoverFromCommandLine
)
perturber_type()
(in
TorsionSamplingKinematicPerturber
)
PSEUDOCONTACT_SHIFT_DATA
(in
Enum
)
parse_my_tag()
(in
LoopOver
)
perturber_type()
(in
TorsionSweepingKinematicPerturber
)
PSEUDOCONTACT_SHIFT_DATA
(in
CacheableDataType
)
parse_my_tag()
(in
LoopRemodel
)
perturber_type()
(in
VicinitySamplingKinematicPerturber
)
PSEUDOCONTACT_SHIFT_MULTI_DATA
(in
Enum
)
parse_my_tag()
(in
MapHotspot
)
PerturberAP
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
PSEUDOCONTACT_SHIFT_MULTI_DATA
(in
CacheableDataType
)
parse_my_tag()
(in
PatchdockTransform
)
PerturberCAP
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
PseudocontactShiftEnergyCreator
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
parse_my_tag()
(in
PeptideStapleDesignMover
)
perturbers
(in
rosetta.protocols.kinematic_closure
)
PseudocontactShiftEnergyCreator_Ts1
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
parse_my_tag()
(in
PlaceOnLoop
)
PerturberSet
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
PseudocontactShiftEnergyCreator_Ts1AP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
parse_my_tag()
(in
PlaceSimultaneouslyMover
)
PerturberSetAP
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
PseudocontactShiftEnergyCreator_Ts1CAP
(in
rosetta.protocols.scoring.methods.pcsTs1._protocols_scoring_methods_pcsTs1_
)
parse_my_tag()
(in
PlaceStubMover
)
PerturberSetCAP
(in
rosetta.protocols.kinematic_closure.perturbers._protocols_kinematic_closure_perturbers_
)
PseudocontactShiftEnergyCreator_Ts2
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
parse_my_tag()
(in
PlacementAuctionMover
)
PerturbRotamerSidechainMover
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
PseudocontactShiftEnergyCreator_Ts2AP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
parse_my_tag()
(in
PlacementMinimizationMover
)
PerturbRotamerSidechainMoverAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
PseudocontactShiftEnergyCreator_Ts2CAP
(in
rosetta.protocols.scoring.methods.pcsTs2._protocols_scoring_methods_pcsTs2_
)
parse_my_tag()
(in
PrepackMover
)
PerturbRotamerSidechainMoverCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
PseudocontactShiftEnergyCreator_Ts3
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
parse_my_tag()
(in
ProteinInterfaceMultiStateDesignMover
)
PerturbRotamerSidechainMoverCreator
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
PseudocontactShiftEnergyCreator_Ts3AP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
parse_my_tag()
(in
RandomMutation
)
PerturbRotamerSidechainMoverCreatorAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
PseudocontactShiftEnergyCreator_Ts3CAP
(in
rosetta.protocols.scoring.methods.pcsTs3._protocols_scoring_methods_pcsTs3_
)
parse_my_tag()
(in
RepackMinimize
)
PerturbRotamerSidechainMoverCreatorCAP
(in
rosetta.protocols.simple_moves.sidechain_moves._protocols_simple_moves_sidechain_moves_
)
PseudocontactShiftEnergyCreator_Ts4
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
parse_my_tag()
(in
SaveAndRetrieveSidechains
)
PG_like
(in
rosetta.protocols.fldsgn.topology
)
PseudocontactShiftEnergyCreator_Ts4AP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
parse_my_tag()
(in
SetAtomTree
)
PG_like
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
PseudocontactShiftEnergyCreator_Ts4CAP
(in
rosetta.protocols.scoring.methods.pcsTs4._protocols_scoring_methods_pcsTs4_
)
parse_my_tag()
(in
SetTemperatureFactor
)
PG_like
(in
SheetFoldType
)
PseudocontactShiftEnergyCreatorAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
parse_my_tag()
(in
SetupHotspotConstraintsLoopsMover
)
PH_PO
(in
rosetta.core.scoring.motif
)
PseudocontactShiftEnergyCreatorCAP
(in
rosetta.protocols.scoring.methods.pcs._protocols_scoring_methods_pcs_
)
parse_my_tag()
(in
SetupHotspotConstraintsMover
)
PH_PO
(in
rosetta.core.scoring.motif._core_scoring_motif_
)
pseudorotation()
(in
DNABase
)
parse_my_tag()
(in
ShoveResidueMover
)
PH_PO
(in
RPM_Type
)
PSF_NEED_FULL_POSE_SET
(in
rosetta.protocols.rosetta_scripts
)
parse_my_tag()
(in
SpinMover
)
phase()
(in
TorsionFourierComponent
)
PSF_NEED_FULL_POSE_SET
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_my_tag()
(in
SubroutineMover
)
phe_tyr_corrections()
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
PSF_NEED_FULL_POSE_SET
(in
PoseSelectorFlags
)
parse_my_tag()
(in
TaskAwareCsts
)
pHEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
PSF_NONE
(in
rosetta.protocols.rosetta_scripts
)
parse_my_tag()
(in
TopologyBrokerMover
)
pHEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
PSF_NONE
(in
rosetta.protocols.rosetta_scripts._protocols_rosetta_scripts_
)
parse_my_tag()
(in
TryRotamers
)
pHEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
PSF_NONE
(in
PoseSelectorFlags
)
parse_my_tag()
(in
VLB
)
pHEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
PSI
(in
rosetta
)
parse_my_tag()
(in
AutoRBMover
)
pHEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
PSI
(in
rosetta.core.scoring
)
parse_my_tag()
(in
FragInsertAndAlignMover
)
pHEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
PSI
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
GaussianRBSegmentMover
)
PhenixInterface
(in
rosetta.core.scoring.cryst._core_scoring_cryst_
)
PSI
(in
ProteinTorsion
)
parse_my_tag()
(in
HelicalGaussianMover
)
PhenixInterfaceAP
(in
rosetta.core.scoring.cryst._core_scoring_cryst_
)
Psi
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
IdealizeHelicesMover
)
PhenixInterfaceCAP
(in
rosetta.core.scoring.cryst._core_scoring_cryst_
)
psi()
(in
VallResidue
)
parse_my_tag()
(in
MakeStarTopologyMover
)
PHI
(in
rosetta
)
psi()
(in
DecoyStruct
)
parse_my_tag()
(in
OptimizeThreadingMover
)
PHI
(in
rosetta.core.chemical
)
psi()
(in
Pose
)
parse_my_tag()
(in
RBSegmentMover
)
PHI
(in
CPParameter
)
psi()
(in
Xfres
)
parse_my_tag()
(in
RBSegmentRelax
)
PHI
(in
rosetta.core.chemical._core_chemical_
)
psi()
(in
EulerAngles_Real
)
parse_my_tag()
(in
SequenceShiftMover
)
PHI
(in
rosetta.core.id
)
psi()
(in
EulerAngles_double
)
parse_my_tag()
(in
StrandTwistingMover
)
PHI
(in
DOF_Type
)
psi()
(in
EulerAngles_float
)
parse_my_tag()
(in
AtomCoordinateCstMover
)
PHI
(in
rosetta.core.id._core_id_
)
psi()
(in
PhiPsiTalosIO
)
parse_my_tag()
(in
CentroidRelax
)
PHI
(in
rosetta.core.scoring
)
psi()
(in
VallResidue
)
parse_my_tag()
(in
ClassicRelax
)
PHI
(in
rosetta.core.scoring._core_scoring_
)
psi()
(in
RMSVallData
)
parse_my_tag()
(in
FastRelax
)
PHI
(in
ProteinTorsion
)
psi()
(in
VallData
)
parse_my_tag()
(in
LocalRelax
)
Phi
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
psi()
(in
ClosureProblem
)
parse_my_tag()
(in
MiniRelax
)
phi()
(in
Adduct
)
psi()
(in
BackboneSegment
)
parse_my_tag()
(in
RelaxProtocolBase
)
phi()
(in
AtomICoor
)
psi()
(in
ProteinBackboneBuildPoint
)
parse_my_tag()
(in
MPFastRelaxMover
)
phi()
(in
ICoorOrbitalData
)
psi()
(in
PNatRotOptEPositionData
)
parse_my_tag()
(in
MembraneCenterPerturbationMover
)
phi()
(in
VallResidue
)
psi()
(in
MainChainTorsionSet
)
parse_my_tag()
(in
MembraneNormalPerturbationMover
)
phi()
(in
DecoyStruct
)
psi_degrees()
(in
EulerAngles_Real
)
parse_my_tag()
(in
MovePoseToMembraneCenterMover
)
phi()
(in
Pose
)
psi_degrees()
(in
EulerAngles_double
)
parse_my_tag()
(in
RigidBodyDeterministicSpinMover
)
phi()
(in
Xfres
)
psi_degrees()
(in
EulerAngles_float
)
parse_my_tag()
(in
RigidBodyDofPerturbMover
)
phi()
(in
EulerAngles_Real
)
psi_index()
(in
OmegaTether
)
parse_my_tag()
(in
RigidBodyDofRandomTransMover
)
phi()
(in
EulerAngles_double
)
psi_max()
(in
ABEGO
)
parse_my_tag()
(in
RigidBodyDofRandomizeMover
)
phi()
(in
EulerAngles_float
)
psi_min()
(in
ABEGO
)
parse_my_tag()
(in
RigidBodyDofSeqPerturbMover
)
phi()
(in
DimerPairing
)
psi_radians()
(in
EulerAngles_Real
)
parse_my_tag()
(in
RigidBodyDofSeqRandomizeMover
)
phi()
(in
PhiPsiTalosIO
)
psi_radians()
(in
EulerAngles_double
)
parse_my_tag()
(in
RigidBodyDofSeqTransMover
)
phi()
(in
VallResidue
)
psi_radians()
(in
EulerAngles_float
)
parse_my_tag()
(in
RigidBodyDofTransMover
)
phi()
(in
RMSVallData
)
PsiAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
RigidBodyMotionMover
)
phi()
(in
VallData
)
PsiCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
RigidBodyMover
)
phi()
(in
ClosureProblem
)
PSSM2BfactorMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyPerturbMover
)
phi()
(in
BackboneSegment
)
PSSM2BfactorMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyPerturbNoCenterMover
)
phi()
(in
ProteinBackboneBuildPoint
)
PSSM2BfactorMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyPerturbRandomJumpMover
)
phi()
(in
PNatRotOptEPositionData
)
PSSM2BfactorMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyRandomizeMover
)
phi()
(in
MainChainTorsionSet
)
PSSM2BfactorMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodySpinMover
)
phi_degrees()
(in
EulerAngles_Real
)
PSSM2BfactorMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
parse_my_tag()
(in
RigidBodyTransMover
)
phi_degrees()
(in
EulerAngles_double
)
pssm_()
(in
ReportPSSMDifferences
)
parse_my_tag()
(in
RollMover
)
phi_degrees()
(in
EulerAngles_float
)
pssm_data
(in
OptEPositionDataType
)
parse_my_tag()
(in
RotateJumpAxisMover
)
phi_index()
(in
OmegaTether
)
pssm_data
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
UniformRigidBodyCM
)
phi_max()
(in
ABEGO
)
pssm_data
(in
rosetta.protocols.optimize_weights
)
parse_my_tag()
(in
UniformRigidBodyMover
)
phi_min()
(in
ABEGO
)
pssm_energy_at_frame_seqpos()
(in
NMerPSSMEnergy
)
parse_my_tag()
(in
UniformSphereTransMover
)
phi_radians()
(in
EulerAngles_Real
)
PSSMOptEPositionData
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
WholeBodyRotationMover
)
phi_radians()
(in
EulerAngles_double
)
PSSMOptEPositionDataAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
WholeBodyTranslationMover
)
phi_radians()
(in
EulerAngles_float
)
PSSMOptEPositionDataCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
parse_my_tag()
(in
AdditionalOutputWrapper
)
PhiAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pt_gaussian
(in
PertType
)
parse_my_tag()
(in
MultipleOutputWrapper
)
PhiCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pt_gaussian
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
parse_my_tag()
(in
MultiplePoseMover
)
phipsi_in_allowed_rama()
(in
Ramachandran
)
pt_gaussian
(in
rosetta.protocols.helical_bundle
)
parse_my_tag()
(in
ParsedProtocol
)
phipsi_in_forbidden_rama()
(in
Ramachandran
)
pt_undefined_perturbation
(in
PertType
)
parse_my_tag()
(in
PosePropertyReporter
)
PhiPsiRmsd
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pt_undefined_perturbation
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
parse_my_tag()
(in
PoseSelector
)
PhiPsiRmsdAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pt_undefined_perturbation
(in
rosetta.protocols.helical_bundle
)
parse_my_tag()
(in
SavePoseMover
)
PhiPsiRmsdCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pt_uniform
(in
PertType
)
parse_my_tag()
(in
RotamerRecoveryMover
)
PhiPsiSquareWell
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pt_uniform
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
parse_my_tag()
(in
CAcstGenerator
)
PhiPsiSquareWellAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
pt_uniform
(in
rosetta.protocols.helical_bundle
)
parse_my_tag()
(in
CloseFold
)
PhiPsiSquareWellCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
PtType
(in
ElectrostaticpotentialGrid
)
parse_my_tag()
(in
CoordinateCst
)
PhiPsiTalosIO
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
public_array_to_private_data()
(in
CentroidRotamerSampleData
)
parse_my_tag()
(in
DefineMovableLoops
)
PhiPsiTalosIOAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
pucker()
(in
RNA_SugarStepWiseSampler
)
parse_my_tag()
(in
GrowPeptides
)
PhiPsiTalosIOCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
pucker_state()
(in
RNA_ChiStepWiseSampler
)
parse_my_tag()
(in
SeedFoldTree
)
PHOSPHATE
(in
rosetta
)
PuckerState
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
parse_my_tag()
(in
SeedSetupMover
)
PHOSPHATE
(in
rosetta.core.chemical
)
PURE_TOPO_RESAMPLING
(in
IterationStage
)
parse_my_tag()
(in
SegmentHybridizer
)
PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
PURE_TOPO_RESAMPLING
(in
IterativeBase
)
parse_my_tag()
(in
SwapSegment
)
PHOSPHATE
(in
ResidueProperty
)
push()
(in
ABEGO_SS_Pool
)
parse_my_tag()
(in
AbinitioBaseFilter
)
PHOSPHATE
(in
rosetta.core.chemical.rna
)
push()
(in
QuotaPool
)
parse_my_tag()
(in
AlaScan
)
PHOSPHATE
(in
BaseEdge
)
push()
(in
SecondaryStructurePool
)
parse_my_tag()
(in
AngleToVector
)
PHOSPHATE
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
push_back()
(in
PseudoBondCollection
)
parse_my_tag()
(in
AtomicContactFilter
)
phosphate
(in
rosetta.protocols.stepwise.modeler.rna
)
push_back()
(in
EdgeList
)
parse_my_tag()
(in
AtomicDistanceFilter
)
phosphate_base_phosphate_rmsd()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
push_back()
(in
SequenceMapping
)
parse_my_tag()
(in
AveragePathLengthFilter
)
phosphate_base_phosphate_square_deviation()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
push_back()
(in
SilentFileData
)
parse_my_tag()
(in
BuriedUnsatHbondFilter
)
phosphate_move_list()
(in
MultiPhosphateSampler
)
push_back()
(in
TaskFactory
)
parse_my_tag()
(in
COFilter
)
PHOSPHATE_PACK
(in
rosetta.protocols.stepwise.screener
)
push_back()
(in
StrandPairingSet
)
parse_my_tag()
(in
ConservedPosMutationFilter
)
PHOSPHATE_PACK
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
push_back()
(in
MotifHits
)
parse_my_tag()
(in
ConstraintScoreCutoffFilter
)
PHOSPHATE_PACK
(in
StepWiseScreenerType
)
push_back()
(in
IntervalSet_T_double_T
)
parse_my_tag()
(in
DdGScan
)
phosphate_square_deviation()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
push_back()
(in
PeptideDeriverOutputterContainer
)
parse_my_tag()
(in
DdgFilter
)
PhosphateMove
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
push_back()
(in
Cluster
)
parse_my_tag()
(in
DeltaFilter
)
PhosphateMoveAP
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
push_back()
(in
GatherPosesMover
)
parse_my_tag()
(in
DisulfideEntropyFilter
)
PhosphateMoveCAP
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
push_back()
(in
BetaAlphaBetaMotifSet
)
parse_my_tag()
(in
DomainInterfaceFilter
)
PhosphateMover
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
push_back()
(in
HSSTripletSet
)
parse_my_tag()
(in
EnergyPerResidueFilter
)
PhosphateMoverAP
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
push_back()
(in
HelixPairingSet
)
parse_my_tag()
(in
EvaluatedTrialMover
)
PhosphateMoverCAP
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
push_back()
(in
SheetSet
)
parse_my_tag()
(in
ExpiryFilter
)
PhosphateScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
push_back()
(in
StrandPairingSet
)
parse_my_tag()
(in
FileExistFilter
)
PhosphateScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
push_back()
(in
VallChunk
)
parse_my_tag()
(in
FileRemoveFilter
)
PhosphateScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
push_back()
(in
VallProvider
)
parse_my_tag()
(in
GeometryFilter
)
PhosphateTerminus
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
push_back()
(in
Loops
)
parse_my_tag()
(in
HolesFilter
)
PHOSPHONATE
(in
rosetta
)
push_back()
(in
LoopsFileData
)
parse_my_tag()
(in
InterRepeatContactFilter
)
PHOSPHONATE
(in
rosetta.core.chemical
)
push_back()
(in
MonteCarlo
)
parse_my_tag()
(in
InterfaceBindingEnergyDensityFilter
)
PHOSPHONATE
(in
rosetta.core.chemical._core_chemical_
)
push_back()
(in
DecoySetEvaluation
)
parse_my_tag()
(in
InterfaceSasaFilter
)
PHOSPHONATE
(in
ResidueProperty
)
push_back()
(in
WorkUnitQueue
)
parse_my_tag()
(in
IntraRepeatContactFilter
)
PHOSPHONATE_UPPER
(in
rosetta
)
push_back()
(in
WorkUnitQueue_Swapped
)
parse_my_tag()
(in
LeastNativeLike9merFilter
)
PHOSPHONATE_UPPER
(in
rosetta.core.chemical
)
push_back()
(in
WUQueue
)
parse_my_tag()
(in
MotifScoreFilter
)
PHOSPHONATE_UPPER
(in
rosetta.core.chemical._core_chemical_
)
push_back_and_finalize()
(in
StrandPairingSet
)
parse_my_tag()
(in
MultipleSigmoids
)
PHOSPHONATE_UPPER
(in
ResidueProperty
)
push_back_CA_xyz()
(in
DecoySetEvaluation
)
parse_my_tag()
(in
MutationsFilter
)
PHOSPHONATE_UPPER_VARIANT
(in
rosetta
)
push_back_CA_xyz_from_silent_file()
(in
DecoySetEvaluation
)
parse_my_tag()
(in
NMerPSSMEnergyFilter
)
PHOSPHONATE_UPPER_VARIANT
(in
rosetta.core.chemical
)
push_back_raw()
(in
MotifHits
)
parse_my_tag()
(in
NMerSVMEnergyFilter
)
PHOSPHONATE_UPPER_VARIANT
(in
rosetta.core.chemical._core_chemical_
)
push_front()
(in
EdgeList
)
parse_my_tag()
(in
NeighborTypeFilter
)
PHOSPHONATE_UPPER_VARIANT
(in
VariantType
)
push_front()
(in
Cluster
)
parse_my_tag()
(in
NetChargeFilter
)
PHOSPHORYLATION
(in
rosetta
)
push_front()
(in
WorkUnitQueue
)
parse_my_tag()
(in
NonSequentialNeighborsFilter
)
PHOSPHORYLATION
(in
rosetta.core.chemical
)
push_front()
(in
WorkUnitQueue_Swapped
)
parse_my_tag()
(in
Operator
)
PHOSPHORYLATION
(in
rosetta.core.chemical._core_chemical_
)
push_front()
(in
WUQueue
)
parse_my_tag()
(in
PDDFScoreFilter
)
PHOSPHORYLATION
(in
VariantType
)
push_passport()
(in
Conformation
)
parse_my_tag()
(in
PackStatFilter
)
physical()
(in
JumpClaim
)
push_passport()
(in
SymmetricConformation
)
parse_my_tag()
(in
PackerNeighborGraphFilter
)
pi()
(in
NumericTraits_T_double_T
)
push_to_front_of_history_queue()
(in
recent_history_queue
)
parse_my_tag()
(in
PoseComment
)
pi()
(in
NumericTraits_T_float_T
)
put_in_cutpoint()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
parse_my_tag()
(in
PoseInfoFilter
)
pi()
(in
NumericTraits_T_long_double_T
)
put_in_cutpoints()
(in
TransientCutpointHandler
)
parse_my_tag()
(in
RGFilter
)
pi_2()
(in
NumericTraits_T_double_T
)
put_intra_into_total()
(in
HBondOptions
)
parse_my_tag()
(in
RangeFilter
)
pi_2()
(in
NumericTraits_T_float_T
)
put_intra_into_total()
(in
EnergyMethodOptions
)
parse_my_tag()
(in
RelativePoseFilter
)
pi_2()
(in
NumericTraits_T_long_double_T
)
put_jump_stubs_intra_residue()
(in
FoldTree
)
parse_my_tag()
(in
RepeatParameterFilter
)
pi_2_over_3()
(in
NumericTraits_T_double_T
)
PValuedFragmentScoreManager
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ReportFilter
)
pi_2_over_3()
(in
NumericTraits_T_float_T
)
PValuedFragmentScoreManagerAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueBurialFilter
)
pi_2_over_3()
(in
NumericTraits_T_long_double_T
)
PValuedFragmentScoreManagerCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
parse_my_tag()
(in
ResidueCountFilter
)
pi_3_over_4()
(in
NumericTraits_T_double_T
)
Px
(in
AtomicOrbitalTypes
)
parse_my_tag()
(in
ResidueDistanceFilter
)
pi_3_over_4()
(in
NumericTraits_T_float_T
)
Px
(in
GasteigerAtomTypeData
)
parse_my_tag()
(in
ResidueIEFilter
)
pi_3_over_4()
(in
NumericTraits_T_long_double_T
)
px()
(in
HomogeneousTransform_T_double_T
)
parse_my_tag()
(in
ResidueSetChainEnergyFilter
)
pi_over_180()
(in
NumericTraits_T_double_T
)
px()
(in
xyzTransform_T_double_T
)
parse_my_tag()
(in
ResiduesInInterfaceFilter
)
pi_over_180()
(in
NumericTraits_T_float_T
)
px()
(in
xyzTransform_T_float_T
)
parse_my_tag()
(in
RotamerBoltzmannWeight
)
pi_over_180()
(in
NumericTraits_T_long_double_T
)
Py
(in
AtomicOrbitalTypes
)
parse_my_tag()
(in
SAXSScoreFilter
)
pi_over_2()
(in
NumericTraits_T_double_T
)
Py
(in
GasteigerAtomTypeData
)
parse_my_tag()
(in
SSMotifFinder
)
pi_over_2()
(in
NumericTraits_T_float_T
)
py
(in
rosetta.utility
)
parse_my_tag()
(in
SavePoseConstraintToFileFilter
)
pi_over_2()
(in
NumericTraits_T_long_double_T
)
py()
(in
HomogeneousTransform_T_double_T
)
parse_my_tag()
(in
SaveResfileToDiskFilter
)
pi_over_3()
(in
NumericTraits_T_double_T
)
py()
(in
xyzTransform_T_double_T
)
parse_my_tag()
(in
ScoreCutoffFilter
)
pi_over_3()
(in
NumericTraits_T_float_T
)
py()
(in
xyzTransform_T_float_T
)
parse_my_tag()
(in
ScoreTypeFilter
)
pi_over_3()
(in
NumericTraits_T_long_double_T
)
Py_basic_datacache_DataCache_CacheableObserver
(in
rosetta.core.pose._core_pose_
)
parse_my_tag()
(in
ShapeComplementarityFilter
)
pi_over_4()
(in
NumericTraits_T_double_T
)
Py_WidgetFactory_EntityElementCreator
(in
rosetta.protocols._protocols_
)
parse_my_tag()
(in
SheetFilter
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pi_over_4()
(in
NumericTraits_T_float_T
)
py_xdec_ref()
(in
rosetta.utility._utility_
)
parse_my_tag()
(in
SidechainRmsdFilter
)
pi_over_4()
(in
NumericTraits_T_long_double_T
)
py_xinc_ref()
(in
rosetta.utility._utility_
)
parse_my_tag()
(in
Sigmoid
)
pick()
(in
EndToEndPivots
)
Py_xyzTransform_double
(in
rosetta.numeric._numeric_
)
parse_my_tag()
(in
StemFinder
)
pick()
(in
FixedOffsetPivots
)
Py_xyzTransform_doubleAP
(in
rosetta.numeric._numeric_
)
parse_my_tag()
(in
SymmetricMotifFilter
)
pick()
(in
FixedPivots
)
Py_xyzTransform_doubleCAP
(in
rosetta.numeric._numeric_
)
parse_my_tag()
(in
TaskAwareSASAFilter
)
pick()
(in
LoopPivots
)
PyEnergyMethodRegistrator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
TaskAwareScoreTypeFilter
)
pick()
(in
PivotPicker
)
PyEnergyMethodRegistratorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
TerminusDistanceFilter
)
pick()
(in
StandardPivots
)
PyEnergyMethodRegistratorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
parse_my_tag()
(in
TotalSasaFilter
)
pick_a_rotamer()
(in
RotamerAssigningAnnealer
)
PyExitCallback
(in
rosetta.utility.py._utility_py_
)
parse_my_tag()
(in
AddCavitiesMover
)
pick_a_rotamer_for_node()
(in
RotamerAssigningAnnealer
)
PyExitCallbackAP
(in
rosetta.utility.py._utility_py_
)
parse_my_tag()
(in
AddChainMover
)
pick_and_apply()
(in
FilteredSolutions
)
PyExitCallbackCAP
(in
rosetta.utility.py._utility_py_
)
parse_my_tag()
(in
AddConstraintsToCurrentConformationMover
)
pick_and_apply()
(in
RandomSolutions
)
PyJobDistributor
(in
rosetta
)
parse_my_tag()
(in
AddJobPairData
)
pick_and_apply()
(in
SolutionPicker
)
pymol()
(in
PyMolObserver
)
parse_my_tag()
(in
AlignChainMover
)
pick_baserotamer_from_rotblock()
(in
ContinuousRotamerSet
)
pymol_name()
(in
PyMolMover
)
parse_my_tag()
(in
BBConRotMover
)
pick_candidates()
(in
FragmentPicker
)
PyMolLink
(in
rosetta
)
parse_my_tag()
(in
BBG8T3AMover
)
pick_chunk_candidates()
(in
FragmentPicker
)
PyMOLMover
(in
rosetta.PyMolLink
)
parse_my_tag()
(in
BackboneMover
)
pick_fragments()
(in
rosetta.core.fragment.picking_old.vall._core_fragment_picking_old_vall_
)
PyMolMover
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
BoltzmannRotamerMover
)
pick_fragments_by_ss()
(in
rosetta.core.fragment.picking_old.vall._core_fragment_picking_old_vall_
)
PyMolMoverAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ChainSplitMover
)
pick_fragments_by_ss_plus_aa()
(in
rosetta.core.fragment.picking_old.vall._core_fragment_picking_old_vall_
)
PyMolMoverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ChangeAndResetFoldTreeMover
)
pick_frags()
(in
Templates
)
PyMolMoverCreator
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ClearConstraintsMover
)
pick_large_frags()
(in
Template
)
PyMolMoverCreatorAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
CombinePoseMover
)
pick_large_frags()
(in
Templates
)
PyMolMoverCreatorCAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ConsensusDesignMover
)
pick_loops_chainbreak()
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
PyMOLObserver
(in
rosetta.PyMolLink
)
parse_my_tag()
(in
ConstrainToIdealMover
)
pick_loops_unaligned()
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
PyMolObserver
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ConstraintSetMover
)
pick_loopy_cutpoint()
(in
rosetta.core.kinematics._core_kinematics_
)
PyMolObserverAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
ContingentAcceptMover
)
pick_new_cutpoints()
(in
AnchorMoversData
)
PyMolObserverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
parse_my_tag()
(in
CopyDofMover
)
pick_objfunction()
(in
Scheduler
)
PYRANOSE
(in
rosetta
)
parse_my_tag()
(in
CoupledMover
)
pick_random_chunk()
(in
ChunkTrialMover
)
PYRANOSE
(in
rosetta.core.chemical
)
parse_my_tag()
(in
CutChainMover
)
pick_random_template()
(in
ChunkTrialMover
)
PYRANOSE
(in
rosetta.core.chemical._core_chemical_
)
parse_my_tag()
(in
CyclizationMover
)
pick_sequence_from_database()
(in
DatabaseThread
)
PYRANOSE
(in
ResidueProperty
)
parse_my_tag()
(in
DME_FilterMover
)
pick_solution()
(in
BalancedKicMover
)
PyReturnValuePolicyTest_DummyClassCOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
DeleteChainsMover
)
pick_starting_template()
(in
HybridizeProtocol
)
PyReturnValuePolicyTest_DummyClassOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
DesignRepackMover
)
pick_strategy()
(in
Scheduler
)
PyReturnValuePolicyTest_PoseCOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
DisulfideInsertionMover
)
picking_old
(in
rosetta.core.fragment
)
PyReturnValuePolicyTest_PoseOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
DumpPdb
)
picking_rounds()
(in
ResidueProbDesignOperation
)
PyReturnValuePolicyTest_ScoreFunctionCOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
EnergyCutRotamerTrialsMinMover
)
PiContributionType
(in
GasteigerAtomTypeData
)
PyReturnValuePolicyTest_ScoreFunctionCOP2()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
EnergyCutRotamerTrialsMover
)
PIKAA
(in
rosetta.core.pack.task._core_pack_task_
)
PyReturnValuePolicyTest_ScoreFunctionOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
ExtendedPoseMover
)
PIKAAAP
(in
rosetta.core.pack.task._core_pack_task_
)
PyReturnValuePolicyTest_SF_ReplicaCOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
FavorSequenceProfile
)
PIKAACAP
(in
rosetta.core.pack.task._core_pack_task_
)
PyReturnValuePolicyTest_SF_ReplicaOP()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
parse_my_tag()
(in
FavorSymmetricSequence
)
PIKNA
(in
rosetta.core.pack.task._core_pack_task_
)
PyRosettaEnergy_first
(in
rosetta
)
parse_my_tag()
(in
FindConsensusSequence
)
PIKNAAP
(in
rosetta.core.pack.task._core_pack_task_
)
PyRosettaEnergy_first
(in
rosetta.core.scoring
)
parse_my_tag()
(in
ForceDisulfidesMover
)
PIKNACAP
(in
rosetta.core.pack.task._core_pack_task_
)
PyRosettaEnergy_first
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
GenericMonteCarloMover
)
PIKRNA
(in
rosetta.core.pack.task._core_pack_task_
)
PyRosettaEnergy_first
(in
ScoreType
)
parse_my_tag()
(in
GreenPacker
)
PIKRNAAP
(in
rosetta.core.pack.task._core_pack_task_
)
PyRosettaEnergy_last
(in
rosetta
)
parse_my_tag()
(in
LoadPDBMover
)
PIKRNACAP
(in
rosetta.core.pack.task._core_pack_task_
)
PyRosettaEnergy_last
(in
rosetta.core.scoring
)
parse_my_tag()
(in
LoadUnboundRotMover
)
PiOrbitalElectronegativityMulliken
(in
GasteigerAtomTypeData
)
PyRosettaEnergy_last
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
MSDMover
)
PiOrbitalElectronegativityMulliken
(in
Properties
)
PyRosettaEnergy_last
(in
ScoreType
)
parse_my_tag()
(in
MakePolyXMover
)
PiOrbitalElectronegativityPauling
(in
GasteigerAtomTypeData
)
PyRosettaException
(in
rosetta
)
parse_my_tag()
(in
MembraneTopology
)
PiOrbitalElectronegativityPauling
(in
Properties
)
PyRosettaTwoBodyContextDependentEnergy_first
(in
rosetta
)
parse_my_tag()
(in
MinMover
)
pipemap()
(in
WorkUnit_ElScripts
)
PyRosettaTwoBodyContextDependentEnergy_first
(in
rosetta.core.scoring
)
parse_my_tag()
(in
MinPackMover
)
PiPiCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
PyRosettaTwoBodyContextDependentEnergy_first
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
MissingDensityToJumpMover
)
PiPiCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
PyRosettaTwoBodyContextDependentEnergy_first
(in
ScoreType
)
parse_my_tag()
(in
ModifyVariantTypeMover
)
PiPiCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
PyRosettaTwoBodyContextDependentEnergy_last
(in
rosetta
)
parse_my_tag()
(in
MonteCarloRecover
)
PiValenceStateElectronAffinity
(in
GasteigerAtomTypeData
)
PyRosettaTwoBodyContextDependentEnergy_last
(in
rosetta.core.scoring
)
parse_my_tag()
(in
MonteCarloReset
)
PiValenceStateElectronAffinity
(in
Properties
)
PyRosettaTwoBodyContextDependentEnergy_last
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
MonteCarloTest
)
PiValenceStateIonizationPotential
(in
GasteigerAtomTypeData
)
PyRosettaTwoBodyContextDependentEnergy_last
(in
ScoreType
)
parse_my_tag()
(in
MutateResidue
)
PiValenceStateIonizationPotential
(in
Properties
)
PyRosettaTwoBodyContextIndepenedentEnergy_first
(in
rosetta
)
parse_my_tag()
(in
O2M_MutateMover
)
pivot_atoms()
(in
BackrubMover
)
PyRosettaTwoBodyContextIndepenedentEnergy_first
(in
rosetta.core.scoring
)
parse_my_tag()
(in
PDBReloadMover
)
pivot_atoms()
(in
ClosureProblem
)
PyRosettaTwoBodyContextIndepenedentEnergy_first
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
PSSM2BfactorMover
)
pivot_loop()
(in
ClosureProblem
)
PyRosettaTwoBodyContextIndepenedentEnergy_first
(in
ScoreType
)
parse_my_tag()
(in
PackRotamersMover
)
pivot_pickers
(in
rosetta.protocols.kinematic_closure
)
PyRosettaTwoBodyContextIndepenedentEnergy_last
(in
rosetta
)
parse_my_tag()
(in
PackRotamersMoverLazy
)
pivot_residues()
(in
BackrubMover
)
PyRosettaTwoBodyContextIndepenedentEnergy_last
(in
rosetta.core.scoring
)
parse_my_tag()
(in
PeptideStapleMover
)
pivot_residues()
(in
BackrubSidechainMover
)
PyRosettaTwoBodyContextIndepenedentEnergy_last
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
PeriodicBoxMover
)
pivot_residues()
(in
ClosureProblem
)
PyRosettaTwoBodyContextIndepenedentEnergy_last
(in
ScoreType
)
parse_my_tag()
(in
ProlineFixMover
)
PivotPicker
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
PySocketClient
(in
rosetta.PyMolLink
)
parse_my_tag()
(in
RandomOmegaFlipMover
)
PivotPickerAP
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
python
(in
ScoreType
)
parse_my_tag()
(in
RandomTorsionMover
)
PivotPickerCAP
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
python
(in
rosetta.core.scoring._core_scoring_
)
parse_my_tag()
(in
RepackSidechainsMover
)
place()
(in
Residue
)
python
(in
rosetta.core.scoring
)
parse_my_tag()
(in
RepeatPropagationMover
)
place_adducts()
(in
ResidueTypeSet
)
python
(in
rosetta
)
parse_my_tag()
(in
ReportEffectivePKA
)
place_atom()
(in
Motif
)
PythonPyExitCallback
(in
rosetta
)
parse_my_tag()
(in
RepulsiveOnlyMover
)
place_atom_()
(in
Motif
)
PyTracer
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
ResetBaselineMover
)
place_atom_positions()
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
PyTracerAP
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
ResidueTypeConstraintMover
)
place_atoms()
(in
Motif
)
PyTracerCAP
(in
rosetta.basic._basic_
)
parse_my_tag()
(in
ReturnSidechainMover
)
place_atoms_()
(in
Motif
)
Pz
(in
AtomicOrbitalTypes
)
parse_my_tag()
(in
RingConformationMover
)
place_c()
(in
BruteFunGroupTK
)
Pz
(in
GasteigerAtomTypeData
)
parse_my_tag()
(in
RotamerTrialsMinMover
)
place_c()
(in
FunGroupTK
)
pz()
(in
HomogeneousTransform_T_double_T
)
parse_my_tag()
(in
RotamerTrialsMover
)
place_c()
(in
KinFunGroupTK
)
pz()
(in
xyzTransform_T_double_T
)
parse_my_tag()
(in
RotamerizeMover
)
place_d()
(in
BruteFunGroupTK
)
pz()
(in
xyzTransform_T_float_T
)
parse_my_tag()
(in
SaneMinMover
)
place_d()
(in
FunGroupTK
)
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