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E
E
(in
rosetta.protocols.comparative_modeling.features
)
estimate_dfunc()
(in
USOGFunc
)
eval_twobody_neighbor_energies()
(in
SymmetricScoreFunction
)
E
(in
rosetta.protocols.comparative_modeling.features._protocols_comparative_modeling_features_
)
estimate_membrane_center()
(in
MovePoseToMembraneCenterMover
)
eval_twobody_neighbor_energies()
(in
OtherContextScoreFunction
)
E
(in
TorsionBin
)
ET_BEST_CYCLIC
(in
rosetta.protocols.analysis
)
eval_type()
(in
OnTheFlyEdge
)
E
(in
rosetta.protocols.features
)
ET_BEST_CYCLIC
(in
rosetta.protocols.analysis._protocols_analysis_
)
eval_type()
(in
SymmOnTheFlyEdge
)
E
(in
rosetta.protocols.features._protocols_features_
)
ET_BEST_CYCLIC
(in
PeptideDeriverEntryType
)
eval_type()
(in
HBEvalTuple
)
E
(in
RamachandranHash
)
ET_BEST_LINEAR
(in
rosetta.protocols.analysis
)
eval_type()
(in
HBond
)
e
(in
DatabaseMode
)
ET_BEST_LINEAR
(in
rosetta.protocols.analysis._protocols_analysis_
)
eval_weighted_atom_derivatives_for_minedge()
(in
rosetta.core.scoring._core_scoring_
)
e
(in
TransactionMode
)
ET_BEST_LINEAR
(in
PeptideDeriverEntryType
)
eval_weighted_dof_deriv_for_minnode()
(in
rosetta.core.scoring._core_scoring_
)
e1()
(in
BinaryExpression
)
ET_GENERAL
(in
rosetta.protocols.analysis
)
eval_weighted_res_onebody_energies_for_minnode()
(in
rosetta.core.scoring._core_scoring_
)
e2()
(in
BinaryExpression
)
ET_GENERAL
(in
rosetta.protocols.analysis._protocols_analysis_
)
eval_weighted_res_pair_energy_for_minedge()
(in
rosetta.core.scoring._core_scoring_
)
e_1
(in
PrincipalQuantumNumber
)
ET_GENERAL
(in
PeptideDeriverEntryType
)
eval_ws_atom_derivative()
(in
Constraints
)
e_1
(in
ElectronConfiguration
)
etab_classic_intrares_pair_nblist
(in
rosetta.core.scoring._core_scoring_
)
evalpoly()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
e_2
(in
PrincipalQuantumNumber
)
etab_classic_intrares_pair_nblist
(in
min_pair_data
)
evaluate()
(in
RNA_DMS_LowResolutionPotential
)
e_2
(in
ElectronConfiguration
)
etab_classic_intrares_pair_nblist
(in
rosetta.core.scoring
)
evaluate()
(in
RNA_DMS_Potential
)
e_3
(in
PrincipalQuantumNumber
)
etab_classic_intrares_pair_nblist
(in
rosetta
)
evaluate()
(in
SinXOverX
)
e_3
(in
ElectronConfiguration
)
etab_classic_intrares_single_nblist
(in
rosetta.core.scoring._core_scoring_
)
evaluate()
(in
BranchCoef1
)
e_4
(in
PrincipalQuantumNumber
)
etab_classic_intrares_single_nblist
(in
min_single_data
)
evaluate()
(in
BranchCoef2
)
e_4
(in
ElectronConfiguration
)
etab_classic_intrares_single_nblist
(in
rosetta.core.scoring
)
evaluate()
(in
BiasEnergy
)
e_5
(in
PrincipalQuantumNumber
)
etab_classic_intrares_single_nblist
(in
rosetta
)
evaluate()
(in
HPool_RMSD
)
e_5
(in
ElectronConfiguration
)
etab_pair_nblist
(in
rosetta.core.scoring._core_scoring_
)
evaluate()
(in
HierarchicalLevel
)
e_6
(in
PrincipalQuantumNumber
)
etab_pair_nblist
(in
min_pair_data
)
evaluate()
(in
Pool_RMSD
)
e_6
(in
ElectronConfiguration
)
etab_pair_nblist
(in
rosetta.core.scoring
)
evaluate()
(in
FitnessFunction
)
e_7
(in
PrincipalQuantumNumber
)
etab_pair_nblist
(in
rosetta
)
evaluate()
(in
JobOutputter
)
e_7
(in
ElectronConfiguration
)
etab_single_nblist
(in
rosetta.core.scoring._core_scoring_
)
evaluate()
(in
DynamicAggregateFunction
)
e_D
(in
AngularMomentumQuantumNumber
)
etab_single_nblist
(in
min_single_data
)
evaluate()
(in
EntityFunc
)
e_D
(in
ElectronConfiguration
)
etab_single_nblist
(in
rosetta.core.scoring
)
evaluate()
(in
MultistateAggregateFunction
)
e_F
(in
AngularMomentumQuantumNumber
)
etab_single_nblist
(in
rosetta
)
evaluate()
(in
MultistateFitnessFunction
)
e_F
(in
ElectronConfiguration
)
etable
(in
rosetta.core.scoring
)
evaluate_and_add()
(in
Pool_RMSD
)
e_FirstDer
(in
BorderFlag
)
Etable
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_cbeta()
(in
MembranePotential
)
e_FirstDer
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
etable()
(in
ScoringManager
)
evaluate_cen_rot_env_and_cbeta_deriv()
(in
CenRotEnvPairPotential
)
e_FirstDer
(in
rosetta.numeric.interpolation.spline
)
etable_atom_pair_energies()
(in
rosetta
)
evaluate_cen_rot_env_and_cbeta_score()
(in
CenRotEnvPairPotential
)
e_Natural
(in
BorderFlag
)
etable_energy()
(in
MatchCollisionFilter
)
evaluate_cen_rot_pair_deriv()
(in
CenRotEnvPairPotential
)
e_Natural
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
etable_method
(in
EnergyMethods
)
evaluate_cen_rot_pair_orientation_deriv()
(in
CenRotEnvPairPotential
)
e_Natural
(in
rosetta.numeric.interpolation.spline
)
etable_method
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
evaluate_cen_rot_pair_orientation_score()
(in
CenRotEnvPairPotential
)
e_P
(in
AngularMomentumQuantumNumber
)
etable_method
(in
rosetta.core.scoring.methods
)
evaluate_cen_rot_pair_score()
(in
CenRotEnvPairPotential
)
e_P
(in
ElectronConfiguration
)
etable_options()
(in
EnergyMethodOptions
)
evaluate_constraints()
(in
AddZincSiteConstraints
)
e_Periodic
(in
BorderFlag
)
etable_type()
(in
EnergyMethodOptions
)
evaluate_contact_score()
(in
InterchainPotential
)
e_Periodic
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
EtableAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_derivative()
(in
CHIEnergyFunction
)
e_Periodic
(in
rosetta.numeric.interpolation.spline
)
EtableAtom
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
evaluate_entity
(in
DaemonSetMessage
)
e_pH
(in
ScoreType
)
EtableAtomAP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
evaluate_entity
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
e_pH
(in
rosetta.core.scoring._core_scoring_
)
EtableAtomCAP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
evaluate_entity
(in
rosetta.protocols.pack_daemon
)
e_pH
(in
rosetta.core.scoring
)
EtableCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_env()
(in
MembranePotential
)
e_pH
(in
rosetta
)
EtableClassicIntraEnergyCreator
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_env_and_cbeta_deriv()
(in
SmoothEnvPairPotential
)
e_S
(in
AngularMomentumQuantumNumber
)
EtableClassicIntraEnergyCreatorAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_env_and_cbeta_scores()
(in
EnvPairPotential
)
e_S
(in
ElectronConfiguration
)
EtableClassicIntraEnergyCreatorCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_env_and_cbeta_scores()
(in
SmoothEnvPairPotential
)
E_SS
(in
rosetta.protocols.comparative_modeling.features
)
EtableEnergyCreator
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_env_score()
(in
InterchainPotential
)
E_SS
(in
rosetta.protocols.comparative_modeling.features._protocols_comparative_modeling_features_
)
EtableEnergyCreatorAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_fitnesses()
(in
GeneticAlgorithm
)
E_SS
(in
SSType
)
EtableEnergyCreatorCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_local()
(in
EvaluatedArchive
)
EC
(in
CompoundToken
)
EtableEvaluator
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_pair()
(in
MembranePotential
)
EC
(in
HeaderInformation
)
EtableEvaluatorAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_pair_and_cenpack_deriv()
(in
SmoothEnvPairPotential
)
eckart_correction()
(in
NormalMode
)
EtableEvaluatorCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_pair_and_cenpack_score()
(in
EnvPairPotential
)
Edge
(in
rosetta.core.graph._core_graph_
)
EtableFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
evaluate_pair_and_cenpack_score()
(in
SmoothEnvPairPotential
)
Edge
(in
rosetta.core.kinematics._core_kinematics_
)
EtableFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
evaluate_pair_and_vdw_score()
(in
InterchainPotential
)
edge()
(in
EdgeListElement
)
EtableFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
evaluate_pddf_energy()
(in
PDDFEnergy
)
edge()
(in
RNA_Datum
)
EtableOptions
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_pose()
(in
Protocol
)
edge_connects_flexsegmate()
(in
FlexbbNode
)
EtableOptionsAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_pose()
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
edge_exists()
(in
UpperEdgeGraph_T_core_conformation_PointGraphVertexData_core_conformation_PointGraphEdgeData_T
)
EtableOptionsCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_residues()
(in
AtomAngleSecMatchRPE
)
edge_label()
(in
FoldTree
)
EtableParamsOnePair
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_residues()
(in
AtomDihedralSecMatchRPE
)
edge_list_begin()
(in
Graph
)
EtableParamsOnePairAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_residues()
(in
AtomDistanceSecMatchRPE
)
edge_list_begin()
(in
Node
)
EtableParamsOnePairCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
evaluate_residues()
(in
AtomGeometrySecMatchRPE
)
edge_list_begin()
(in
NodeBase
)
etrie
(in
rosetta.core.scoring.etable
)
evaluate_residues()
(in
GeometrySecMatchRPE
)
edge_list_end()
(in
Graph
)
euclidean_bin_widths()
(in
MatcherTask
)
evaluate_residues()
(in
ScoringSecMatchRPE
)
edge_list_end()
(in
Node
)
euler()
(in
Quaternion
)
evaluate_residues()
(in
SecMatchResiduePairEvaluator
)
edge_list_end()
(in
NodeBase
)
euler_alpha_values()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
ScoreFunction
)
edge_list_iterator_at_end()
(in
InteractionGraphBase
)
euler_angle_bin_max()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
CarbonHBondEnergy
)
edge_weight()
(in
EdgeBase
)
euler_angle_bin_min()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
ConstraintsEnergy
)
EdgeAP
(in
rosetta.core.graph._core_graph_
)
euler_angle_bin_size()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
FullatomCustomPairDistanceEnergy
)
EdgeAP
(in
rosetta.core.kinematics._core_kinematics_
)
euler_angles_deg()
(in
HomogeneousTransform_T_double_T
)
evaluate_rotamer_background_energies()
(in
CentroidDisulfideEnergy
)
EdgeBase
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
euler_angles_deg()
(in
xyzTransform_T_double_T
)
evaluate_rotamer_background_energies()
(in
DisulfideMatchingEnergy
)
EdgeBaseAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
euler_angles_deg()
(in
xyzTransform_T_float_T
)
evaluate_rotamer_background_energies()
(in
FullatomDisulfideEnergy
)
EdgeBaseCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
euler_angles_rad()
(in
HomogeneousTransform_T_double_T
)
evaluate_rotamer_background_energies()
(in
DNATorsionEnergy
)
EdgeCAP
(in
rosetta.core.graph._core_graph_
)
euler_angles_rad()
(in
xyzTransform_T_double_T
)
evaluate_rotamer_background_energies()
(in
FA_ElecEnergy
)
EdgeCAP
(in
rosetta.core.kinematics._core_kinematics_
)
euler_angles_rad()
(in
xyzTransform_T_float_T
)
evaluate_rotamer_background_energies()
(in
FA_ElecEnergyAroAll
)
EdgeList
(in
rosetta.core.graph._core_graph_
)
euler_bin_widths()
(in
MatcherTask
)
evaluate_rotamer_background_energies()
(in
FA_ElecEnergyAroAro
)
edgeList()
(in
SequenceCoupling
)
euler_gamma_values()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
FA_GrpElecEnergy
)
EdgeListAP
(in
rosetta.core.graph._core_graph_
)
euler_offsets()
(in
SixDCoordinateBinner
)
evaluate_rotamer_background_energies()
(in
RNA_FA_ElecEnergy
)
EdgeListCAP
(in
rosetta.core.graph._core_graph_
)
euler_z_bin_max()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
ElecDensAllAtomCenEnergy
)
EdgeListConstIterator
(in
rosetta.core.graph._core_graph_
)
euler_z_bin_min()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
ElecDensCenEnergy
)
EdgeListConstIteratorAP
(in
rosetta.core.graph._core_graph_
)
euler_z_bin_size()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
ElecDensEnergy
)
EdgeListConstIteratorCAP
(in
rosetta.core.graph._core_graph_
)
euler_z_values()
(in
RigidBodyStepWiseSamplerValueRange
)
evaluate_rotamer_background_energies()
(in
FastDensEnergy
)
EdgeListElement
(in
rosetta.core.graph._core_graph_
)
EulerAngles
(in
rosetta.protocols.stepwise.sampler.rigid_body._protocols_stepwise_sampler_rigid_body_
)
evaluate_rotamer_background_energies()
(in
PattersonCorrEnergy
)
EdgeListElementAP
(in
rosetta.core.graph._core_graph_
)
EulerAngles_double
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
ElecDensAtomwiseEnergy
)
EdgeListElementCAP
(in
rosetta.core.graph._core_graph_
)
EulerAngles_doubleAP
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
AnalyticEtableEnergy
)
EdgeListIterator
(in
rosetta.core.graph._core_graph_
)
EulerAngles_doubleCAP
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
EdgeListIteratorAP
(in
rosetta.core.graph._core_graph_
)
EulerAngles_float
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
EdgeListIteratorCAP
(in
rosetta.core.graph._core_graph_
)
EulerAngles_floatAP
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
TableLookupEtableEnergy
)
edgePotBetween()
(in
SequenceCoupling
)
EulerAngles_floatCAP
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
ContextDependentGeometricSolEnergy
)
edgePots()
(in
SequenceCoupling
)
EulerAngles_Real
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
ContextIndependentGeometricSolEnergy
)
EdgeStandScore
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
EulerAngles_RealAP
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
OccludedHbondSolEnergy
)
EdgeStandScoreAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
EulerAngles_RealCAP
(in
rosetta.numeric._numeric_
)
evaluate_rotamer_background_energies()
(in
HackAroEnergy
)
EdgeStandScoreCAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
EulerAnglesAP
(in
rosetta.protocols.stepwise.sampler.rigid_body._protocols_stepwise_sampler_rigid_body_
)
evaluate_rotamer_background_energies()
(in
HBondEnergy
)
effective_sequence_separation()
(in
DunbrackConstraint
)
EulerAnglesCAP
(in
rosetta.protocols.stepwise.sampler.rigid_body._protocols_stepwise_sampler_rigid_body_
)
evaluate_rotamer_background_energies()
(in
DDPscore
)
effective_sequence_separation()
(in
RotamerConstraint
)
eval
(in
rosetta.core.fragment.picking_old.vall
)
evaluate_rotamer_background_energies()
(in
FaMPSolvEnergy
)
effective_sequence_separation()
(in
AmbiguousConstraint
)
eval()
(in
Polynomial_1d
)
evaluate_rotamer_background_energies()
(in
MPPairEnergy
)
effective_sequence_separation()
(in
AmbiguousNMRConstraint
)
eval()
(in
PCA
)
evaluate_rotamer_background_energies()
(in
CartesianBondedEnergy
)
effective_sequence_separation()
(in
AmbiguousNMRDistanceConstraint
)
eval()
(in
SameStrand
)
evaluate_rotamer_background_energies()
(in
CenHBEnergy
)
effective_sequence_separation()
(in
AngleConstraint
)
eval_atom_atom_fa_elecE()
(in
Coulomb
)
evaluate_rotamer_background_energies()
(in
CenPairEnergy
)
effective_sequence_separation()
(in
AtomPairConstraint
)
eval_atom_derivative()
(in
DunbrackEnergy
)
evaluate_rotamer_background_energies()
(in
CenRotPairEnergy
)
effective_sequence_separation()
(in
BackboneStubConstraint
)
eval_atom_derivative()
(in
CenRotDunEnergy
)
evaluate_rotamer_background_energies()
(in
ContextDependentLRTwoBodyEnergy
)
effective_sequence_separation()
(in
BackboneStubLinearConstraint
)
eval_atom_derivative()
(in
HPatchEnergy
)
evaluate_rotamer_background_energies()
(in
ContextDependentTwoBodyEnergy
)
effective_sequence_separation()
(in
BigBinConstraint
)
eval_atom_derivative()
(in
SurfaceEnergy
)
evaluate_rotamer_background_energies()
(in
ContextIndependentLRTwoBodyEnergy
)
effective_sequence_separation()
(in
ConstantConstraint
)
eval_atom_derivative()
(in
GenBornPotential
)
evaluate_rotamer_background_energies()
(in
ContextIndependentTwoBodyEnergy
)
effective_sequence_separation()
(in
Constraint
)
eval_atom_derivative()
(in
CarbonHBondEnergy
)
evaluate_rotamer_background_energies()
(in
CustomAtomPairEnergy
)
effective_sequence_separation()
(in
CoordinateConstraint
)
eval_atom_derivative()
(in
ConstraintsEnergy
)
evaluate_rotamer_background_energies()
(in
DNA_BaseEnergy
)
effective_sequence_separation()
(in
DihedralConstraint
)
eval_atom_derivative()
(in
XtalMLEnergy
)
evaluate_rotamer_background_energies()
(in
Fa_MbsolvEnergy
)
effective_sequence_separation()
(in
DihedralPairConstraint
)
eval_atom_derivative()
(in
FullatomCustomPairDistanceEnergy
)
evaluate_rotamer_background_energies()
(in
GaussianOverlapEnergy
)
effective_sequence_separation()
(in
DistancePairConstraint
)
eval_atom_derivative()
(in
CentroidDisulfideEnergy
)
evaluate_rotamer_background_energies()
(in
GenBornEnergy
)
effective_sequence_separation()
(in
FabConstraint
)
eval_atom_derivative()
(in
DisulfideMatchingEnergy
)
evaluate_rotamer_background_energies()
(in
GoapEnergy
)
effective_sequence_separation()
(in
KofNConstraint
)
eval_atom_derivative()
(in
FullatomDisulfideEnergy
)
evaluate_rotamer_background_energies()
(in
HybridVDW_Energy
)
effective_sequence_separation()
(in
LocalCoordinateConstraint
)
eval_atom_derivative()
(in
DNAChiEnergy
)
evaluate_rotamer_background_energies()
(in
LK_BallEnergy
)
effective_sequence_separation()
(in
MultiConstraint
)
eval_atom_derivative()
(in
DNATorsionEnergy
)
evaluate_rotamer_background_energies()
(in
LK_PolarNonPolarEnergy
)
effective_sequence_separation()
(in
NamedAngleConstraint
)
eval_atom_derivative()
(in
FA_ElecEnergy
)
evaluate_rotamer_background_energies()
(in
LK_hack
)
effective_sequence_separation()
(in
NamedAtomPairConstraint
)
eval_atom_derivative()
(in
FA_ElecEnergyAroAll
)
evaluate_rotamer_background_energies()
(in
LongRangeTwoBodyEnergy
)
effective_sequence_separation()
(in
NonResidueTypeConstraint
)
eval_atom_derivative()
(in
FA_ElecEnergyAroAro
)
evaluate_rotamer_background_energies()
(in
MMBondAngleEnergy
)
effective_sequence_separation()
(in
ResidueTypeConstraint
)
eval_atom_derivative()
(in
FA_GrpElecEnergy
)
evaluate_rotamer_background_energies()
(in
MMBondLengthEnergy
)
effective_sequence_separation()
(in
ResidueTypeLinkingConstraint
)
eval_atom_derivative()
(in
RNA_FA_ElecEnergy
)
evaluate_rotamer_background_energies()
(in
MMLJEnergyInter
)
effective_sequence_separation()
(in
SequenceProfileConstraint
)
eval_atom_derivative()
(in
ElecDensAllAtomCenEnergy
)
evaluate_rotamer_background_energies()
(in
MMLJEnergyIntra
)
effective_sequence_separation()
(in
SiteConstraint
)
eval_atom_derivative()
(in
ElecDensCenEnergy
)
evaluate_rotamer_background_energies()
(in
MMTorsionEnergy
)
effective_sequence_separation()
(in
SiteConstraintResidues
)
eval_atom_derivative()
(in
ElecDensEnergy
)
evaluate_rotamer_background_energies()
(in
MembraneCenPairEnergy
)
effective_sequence_separation()
(in
AmbiguousMultiConstraint
)
eval_atom_derivative()
(in
FastDensEnergy
)
evaluate_rotamer_background_energies()
(in
PairEnergy
)
effective_sequence_separation()
(in
BindingSiteConstraint
)
eval_atom_derivative()
(in
PattersonCorrEnergy
)
evaluate_rotamer_background_energies()
(in
PeptideBondEnergy
)
effective_sequence_separation()
(in
COMCoordinateConstraint
)
eval_atom_derivative()
(in
ElecDensAtomwiseEnergy
)
evaluate_rotamer_background_energies()
(in
PoissonBoltzmannEnergy
)
effective_sequence_separation()
(in
SequenceCoupling1BDConstraint
)
eval_atom_derivative()
(in
AnalyticEtableEnergy
)
evaluate_rotamer_background_energies()
(in
ProClosureEnergy
)
effective_sequence_separation()
(in
SequenceCouplingConstraint
)
eval_atom_derivative()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
evaluate_rotamer_background_energies()
(in
Rama2BOffsetEnergy
)
effective_sequence_separation()
(in
PocketConstraint
)
eval_atom_derivative()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
evaluate_rotamer_background_energies()
(in
RamachandranEnergy2B
)
EFr
(in
rosetta.protocols.fldsgn.topology
)
eval_atom_derivative()
(in
TableLookupEtableEnergy
)
evaluate_rotamer_background_energies()
(in
ShortRangeTwoBodyEnergy
)
EFr
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
eval_atom_derivative()
(in
FiberDiffractionEnergy
)
evaluate_rotamer_background_energies()
(in
SmoothCenPairEnergy
)
EFr
(in
SheetFoldType
)
eval_atom_derivative()
(in
FiberDiffractionEnergyDens
)
evaluate_rotamer_background_energies()
(in
SuckerEnergy
)
eggshell_coord_list()
(in
EggshellGrid
)
eval_atom_derivative()
(in
ContextDependentGeometricSolEnergy
)
evaluate_rotamer_background_energies()
(in
TwoBodyEnergy
)
EggshellGrid
(in
rosetta.protocols.pockets._protocols_pockets_
)
eval_atom_derivative()
(in
ContextIndependentGeometricSolEnergy
)
evaluate_rotamer_background_energies()
(in
WaterAdductHBondEnergy
)
EggshellGridAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
eval_atom_derivative()
(in
ExactOccludedHbondSolEnergy
)
evaluate_rotamer_background_energies()
(in
DFIRE_Energy
)
EggshellGridCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
eval_atom_derivative()
(in
OccludedHbondSolEnergy
)
evaluate_rotamer_background_energies()
(in
OrbitalsScore
)
eigenvalue_jacobi()
(in
rosetta.numeric._numeric_
)
eval_atom_derivative()
(in
OccludedHbondSolEnergy_onebody
)
evaluate_rotamer_background_energies()
(in
RNA_FullAtomStackingEnergy
)
eigenvector_jacobi()
(in
rosetta.numeric._numeric_
)
eval_atom_derivative()
(in
HackAroEnergy
)
evaluate_rotamer_background_energies()
(in
RNA_JR_SuiteEnergy
)
EIsometry
(in
rosetta
)
eval_atom_derivative()
(in
HBondEnergy
)
evaluate_rotamer_background_energies()
(in
RNA_LJ_BaseEnergy
)
EIsometry
(in
rosetta.core.chemical
)
eval_atom_derivative()
(in
DDPscore
)
evaluate_rotamer_background_energies()
(in
RNA_Mg_Energy
)
EIsometry
(in
BondIsometry
)
eval_atom_derivative()
(in
LoopCloseEnergy
)
evaluate_rotamer_background_energies()
(in
RNA_PairwiseLowResolutionEnergy
)
EIsometry
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
FaMPEnvEnergy
)
evaluate_rotamer_background_energies()
(in
RNA_SuiteEnergy
)
EItem
(in
rosetta.core.optimization._core_optimization_
)
eval_atom_derivative()
(in
FaMPEnvSmoothEnergy
)
evaluate_rotamer_background_energies()
(in
RNA_TorsionEnergy
)
EItemAP
(in
rosetta.core.optimization._core_optimization_
)
eval_atom_derivative()
(in
FaMPSolvEnergy
)
evaluate_rotamer_background_energies()
(in
RNA_VDW_Energy
)
EItemCAP
(in
rosetta.core.optimization._core_optimization_
)
eval_atom_derivative()
(in
MPCbetaEnergy
)
evaluate_rotamer_background_energies()
(in
StackElecEnergy
)
elapsed_time()
(in
Job
)
eval_atom_derivative()
(in
MPEnvEnergy
)
evaluate_rotamer_background_energies()
(in
RNA_DataBackboneEnergy
)
elec
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
MPLipoEnergy
)
evaluate_rotamer_background_energies()
(in
symEnergy
)
elec_dens_allatom_cen_energy
(in
LongRangeEnergyType
)
eval_atom_derivative()
(in
MPNonHelixPenalty
)
evaluate_rotamer_background_energies()
(in
InterchainPairEnergy
)
elec_dens_allatom_cen_energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_atom_derivative()
(in
MPPairEnergy
)
evaluate_rotamer_background_energy_maps()
(in
CarbonHBondEnergy
)
elec_dens_allatom_cen_energy
(in
rosetta.core.scoring.methods
)
eval_atom_derivative()
(in
MPTMProjPenalty
)
evaluate_rotamer_background_energy_maps()
(in
ConstraintsEnergy
)
elec_dens_atomwise
(in
ScoreType
)
eval_atom_derivative()
(in
MPTerminiPenalty
)
evaluate_rotamer_background_energy_maps()
(in
FullatomCustomPairDistanceEnergy
)
elec_dens_atomwise
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative()
(in
BurialEnergy
)
evaluate_rotamer_background_energy_maps()
(in
CentroidDisulfideEnergy
)
elec_dens_atomwise
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
CartesianBondedEnergy
)
evaluate_rotamer_background_energy_maps()
(in
DisulfideMatchingEnergy
)
elec_dens_atomwise
(in
rosetta
)
eval_atom_derivative()
(in
CenHBEnergy
)
evaluate_rotamer_background_energy_maps()
(in
FullatomDisulfideEnergy
)
elec_dens_atomwise_energy
(in
LongRangeEnergyType
)
eval_atom_derivative()
(in
CenPairEnergy
)
evaluate_rotamer_background_energy_maps()
(in
DNATorsionEnergy
)
elec_dens_atomwise_energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_atom_derivative()
(in
CenRotEnvEnergy
)
evaluate_rotamer_background_energy_maps()
(in
FA_ElecEnergy
)
elec_dens_atomwise_energy
(in
rosetta.core.scoring.methods
)
eval_atom_derivative()
(in
CenRotPairEnergy
)
evaluate_rotamer_background_energy_maps()
(in
FA_ElecEnergyAroAll
)
elec_dens_cen_energy
(in
LongRangeEnergyType
)
eval_atom_derivative()
(in
ChainbreakEnergy
)
evaluate_rotamer_background_energy_maps()
(in
FA_ElecEnergyAroAro
)
elec_dens_cen_energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_atom_derivative()
(in
ChemicalShiftAnisotropyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
FA_GrpElecEnergy
)
elec_dens_cen_energy
(in
rosetta.core.scoring.methods
)
eval_atom_derivative()
(in
ContactOrderEnergy
)
evaluate_rotamer_background_energy_maps()
(in
RNA_FA_ElecEnergy
)
elec_dens_energy
(in
LongRangeEnergyType
)
eval_atom_derivative()
(in
ContextDependentLRTwoBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ElecDensAllAtomCenEnergy
)
elec_dens_energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_atom_derivative()
(in
ContextDependentOneBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ElecDensCenEnergy
)
elec_dens_energy
(in
rosetta.core.scoring.methods
)
eval_atom_derivative()
(in
ContextDependentTwoBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ElecDensEnergy
)
elec_dens_fast
(in
ScoreType
)
eval_atom_derivative()
(in
ContextIndependentLRTwoBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
FastDensEnergy
)
elec_dens_fast
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative()
(in
ContextIndependentOneBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
PattersonCorrEnergy
)
elec_dens_fast
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
ContextIndependentTwoBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ElecDensAtomwiseEnergy
)
elec_dens_fast
(in
rosetta
)
eval_atom_derivative()
(in
CustomAtomPairEnergy
)
evaluate_rotamer_background_energy_maps()
(in
AnalyticEtableEnergy
)
elec_dens_fast_energy
(in
LongRangeEnergyType
)
eval_atom_derivative()
(in
D2H_SA_Energy
)
evaluate_rotamer_background_energy_maps()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
elec_dens_fast_energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_atom_derivative()
(in
DNA_BaseEnergy
)
evaluate_rotamer_background_energy_maps()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
elec_dens_fast_energy
(in
rosetta.core.scoring.methods
)
eval_atom_derivative()
(in
DipolarCouplingEnergy
)
evaluate_rotamer_background_energy_maps()
(in
TableLookupEtableEnergy
)
elec_dens_whole_structure_allatom
(in
ScoreType
)
eval_atom_derivative()
(in
DirectReadoutEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ContextDependentGeometricSolEnergy
)
elec_dens_whole_structure_allatom
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative()
(in
DistanceChainbreakEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ContextIndependentGeometricSolEnergy
)
elec_dens_whole_structure_allatom
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
EnergyMethod
)
evaluate_rotamer_background_energy_maps()
(in
OccludedHbondSolEnergy
)
elec_dens_whole_structure_allatom
(in
rosetta
)
eval_atom_derivative()
(in
EnvEnergy
)
evaluate_rotamer_background_energy_maps()
(in
HackAroEnergy
)
elec_dens_whole_structure_ca
(in
ScoreType
)
eval_atom_derivative()
(in
EnvSmoothEnergy
)
evaluate_rotamer_background_energy_maps()
(in
HBondEnergy
)
elec_dens_whole_structure_ca
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative()
(in
Fa_MbenvEnergy
)
evaluate_rotamer_background_energy_maps()
(in
DDPscore
)
elec_dens_whole_structure_ca
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
Fa_MbsolvEnergy
)
evaluate_rotamer_background_energy_maps()
(in
FaMPSolvEnergy
)
elec_dens_whole_structure_ca
(in
rosetta
)
eval_atom_derivative()
(in
FreeDOF_Energy
)
evaluate_rotamer_background_energy_maps()
(in
MPPairEnergy
)
elec_dens_window
(in
ScoreType
)
eval_atom_derivative()
(in
GaussianOverlapEnergy
)
evaluate_rotamer_background_energy_maps()
(in
CartesianBondedEnergy
)
elec_dens_window
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative()
(in
GenBornEnergy
)
evaluate_rotamer_background_energy_maps()
(in
CenHBEnergy
)
elec_dens_window
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
GoapEnergy
)
evaluate_rotamer_background_energy_maps()
(in
CenPairEnergy
)
elec_dens_window
(in
rosetta
)
eval_atom_derivative()
(in
HybridVDW_Energy
)
evaluate_rotamer_background_energy_maps()
(in
CenRotPairEnergy
)
elec_die()
(in
EnergyMethodOptions
)
eval_atom_derivative()
(in
IntermolEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ContextDependentLRTwoBodyEnergy
)
elec_group_file()
(in
EnergyMethodOptions
)
eval_atom_derivative()
(in
LK_BallEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ContextDependentTwoBodyEnergy
)
elec_max_dis()
(in
EnergyMethodOptions
)
eval_atom_derivative()
(in
LK_PolarNonPolarEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ContextIndependentLRTwoBodyEnergy
)
elec_method
(in
EnergyMethods
)
eval_atom_derivative()
(in
LK_hack
)
evaluate_rotamer_background_energy_maps()
(in
ContextIndependentTwoBodyEnergy
)
elec_method
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_atom_derivative()
(in
LinearChainbreakEnergy
)
evaluate_rotamer_background_energy_maps()
(in
CustomAtomPairEnergy
)
elec_method
(in
rosetta.core.scoring.methods
)
eval_atom_derivative()
(in
LongRangeTwoBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
DNA_BaseEnergy
)
elec_min_dis()
(in
EnergyMethodOptions
)
eval_atom_derivative()
(in
MMBondAngleEnergy
)
evaluate_rotamer_background_energy_maps()
(in
Fa_MbsolvEnergy
)
elec_no_dis_dep_die()
(in
EnergyMethodOptions
)
eval_atom_derivative()
(in
MMBondLengthEnergy
)
evaluate_rotamer_background_energy_maps()
(in
GaussianOverlapEnergy
)
elec_pair_nblist
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative()
(in
MMLJEnergyInter
)
evaluate_rotamer_background_energy_maps()
(in
GenBornEnergy
)
elec_pair_nblist
(in
min_pair_data
)
eval_atom_derivative()
(in
MMLJEnergyIntra
)
evaluate_rotamer_background_energy_maps()
(in
GoapEnergy
)
elec_pair_nblist
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
MMTorsionEnergy
)
evaluate_rotamer_background_energy_maps()
(in
HybridVDW_Energy
)
elec_pair_nblist
(in
rosetta
)
eval_atom_derivative()
(in
MembraneCbetaEnergy
)
evaluate_rotamer_background_energy_maps()
(in
LK_BallEnergy
)
elec_sigmoidal_die()
(in
EnergyMethodOptions
)
eval_atom_derivative()
(in
MembraneCenPairEnergy
)
evaluate_rotamer_background_energy_maps()
(in
LK_PolarNonPolarEnergy
)
elec_sigmoidal_die_params()
(in
EnergyMethodOptions
)
eval_atom_derivative()
(in
MembraneEnvEnergy
)
evaluate_rotamer_background_energy_maps()
(in
LK_hack
)
elec_weight()
(in
FA_ElecEnergy
)
eval_atom_derivative()
(in
MembraneEnvPenalties
)
evaluate_rotamer_background_energy_maps()
(in
LongRangeTwoBodyEnergy
)
ElecAtom
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
eval_atom_derivative()
(in
MembraneEnvSmoothEnergy
)
evaluate_rotamer_background_energy_maps()
(in
MMBondAngleEnergy
)
ElecAtomAP
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
eval_atom_derivative()
(in
MembraneLipo
)
evaluate_rotamer_background_energy_maps()
(in
MMBondLengthEnergy
)
ElecAtomCAP
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
eval_atom_derivative()
(in
MissingEnergy
)
evaluate_rotamer_background_energy_maps()
(in
MMLJEnergyInter
)
ElecDensAllAtomCenEnergy
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
NMerPSSMEnergy
)
evaluate_rotamer_background_energy_maps()
(in
MMLJEnergyIntra
)
ElecDensAllAtomCenEnergyAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
NMerRefEnergy
)
evaluate_rotamer_background_energy_maps()
(in
MMTorsionEnergy
)
ElecDensAllAtomCenEnergyCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
NMerSVMEnergy
)
evaluate_rotamer_background_energy_maps()
(in
MembraneCenPairEnergy
)
ElecDensAllAtomCenEnergyCreator
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
OmegaTetherEnergy
)
evaluate_rotamer_background_energy_maps()
(in
PairEnergy
)
ElecDensAllAtomCenEnergyCreatorAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
OneBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
PeptideBondEnergy
)
ElecDensAllAtomCenEnergyCreatorCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
OtherPoseEnergy
)
evaluate_rotamer_background_energy_maps()
(in
PoissonBoltzmannEnergy
)
ElecDensAtomwiseEnergy
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
P_AA_Energy
)
evaluate_rotamer_background_energy_maps()
(in
ProClosureEnergy
)
ElecDensAtomwiseEnergyAP
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
P_AA_pp_Energy
)
evaluate_rotamer_background_energy_maps()
(in
Rama2BOffsetEnergy
)
ElecDensAtomwiseEnergyCAP
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
PackStatEnergy
)
evaluate_rotamer_background_energy_maps()
(in
RamachandranEnergy2B
)
ElecDensAtomwiseEnergyCreator
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
PairEnergy
)
evaluate_rotamer_background_energy_maps()
(in
ShortRangeTwoBodyEnergy
)
ElecDensAtomwiseEnergyCreatorAP
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
PeptideBondEnergy
)
evaluate_rotamer_background_energy_maps()
(in
SmoothCenPairEnergy
)
ElecDensAtomwiseEnergyCreatorCAP
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
PoissonBoltzmannEnergy
)
evaluate_rotamer_background_energy_maps()
(in
SuckerEnergy
)
ElecDensCenEnergy
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
ProClosureEnergy
)
evaluate_rotamer_background_energy_maps()
(in
TwoBodyEnergy
)
ElecDensCenEnergyAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
ProQ_Energy
)
evaluate_rotamer_background_energy_maps()
(in
WaterAdductHBondEnergy
)
ElecDensCenEnergyCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RG_Energy_Fast
)
evaluate_rotamer_background_energy_maps()
(in
DFIRE_Energy
)
ElecDensCenEnergyCreator
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RG_LocalEnergy
)
evaluate_rotamer_background_energy_maps()
(in
OrbitalsScore
)
ElecDensCenEnergyCreatorAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RMS_Energy
)
evaluate_rotamer_background_energy_maps()
(in
RNA_FullAtomStackingEnergy
)
ElecDensCenEnergyCreatorCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
Rama2BOffsetEnergy
)
evaluate_rotamer_background_energy_maps()
(in
RNA_JR_SuiteEnergy
)
ElecDensEnergy
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RamachandranEnergy
)
evaluate_rotamer_background_energy_maps()
(in
RNA_LJ_BaseEnergy
)
ElecDensEnergyAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RamachandranEnergy2B
)
evaluate_rotamer_background_energy_maps()
(in
RNA_Mg_Energy
)
ElecDensEnergyCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
ReferenceEnergy
)
evaluate_rotamer_background_energy_maps()
(in
RNA_PairwiseLowResolutionEnergy
)
ElecDensEnergyCreator
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
ReferenceEnergyNoncanonical
)
evaluate_rotamer_background_energy_maps()
(in
RNA_SuiteEnergy
)
ElecDensEnergyCreatorAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
ResidualDipolarCouplingEnergy
)
evaluate_rotamer_background_energy_maps()
(in
RNA_TorsionEnergy
)
ElecDensEnergyCreatorCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
ResidualDipolarCouplingEnergy_Rohl
)
evaluate_rotamer_background_energy_maps()
(in
RNA_VDW_Energy
)
ElecGroup
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
eval_atom_derivative()
(in
SA_Energy
)
evaluate_rotamer_background_energy_maps()
(in
StackElecEnergy
)
ElecGroupAP
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
eval_atom_derivative()
(in
SecondaryStructureEnergy
)
evaluate_rotamer_background_energy_maps()
(in
RNA_DataBackboneEnergy
)
ElecGroupCAP
(in
rosetta.core.scoring.elec._core_scoring_elec_
)
eval_atom_derivative()
(in
SequenceDependentRefEnergy
)
evaluate_rotamer_background_energy_maps()
(in
symEnergy
)
ELECTRON_CRYSTALLOGRAPHY
(in
HeaderInformation
)
eval_atom_derivative()
(in
ShortRangeTwoBodyEnergy
)
evaluate_rotamer_background_energy_maps()
(in
InterchainPairEnergy
)
ELECTRON_CRYSTALLOGRAPHY
(in
ExperimentalTechnique
)
eval_atom_derivative()
(in
SmoothCenPairEnergy
)
evaluate_rotamer_intrares_energies()
(in
ScoreFunction
)
ELECTRON_DEFRACTION
(in
HeaderInformation
)
eval_atom_derivative()
(in
SmoothEnvEnergy
)
evaluate_rotamer_intrares_energies()
(in
CarbonHBondEnergy
)
ELECTRON_DEFRACTION
(in
ExperimentalTechnique
)
eval_atom_derivative()
(in
SuckerEnergy
)
evaluate_rotamer_intrares_energies()
(in
ConstraintsEnergy
)
electron_density
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
SymmetricLigandEnergy
)
evaluate_rotamer_intrares_energies()
(in
FullatomCustomPairDistanceEnergy
)
electron_density
(in
rosetta.protocols
)
eval_atom_derivative()
(in
TwoBodyEnergy
)
evaluate_rotamer_intrares_energies()
(in
CentroidDisulfideEnergy
)
electron_density_atomwise
(in
rosetta.core.scoring
)
eval_atom_derivative()
(in
UnfoldedStateEnergy
)
evaluate_rotamer_intrares_energies()
(in
DisulfideMatchingEnergy
)
ELECTRON_MICROSCOPY
(in
HeaderInformation
)
eval_atom_derivative()
(in
WaterAdductHBondEnergy
)
evaluate_rotamer_intrares_energies()
(in
FullatomDisulfideEnergy
)
ELECTRON_MICROSCOPY
(in
ExperimentalTechnique
)
eval_atom_derivative()
(in
WaterAdductIntraEnergy
)
evaluate_rotamer_intrares_energies()
(in
DNATorsionEnergy
)
ElectronConfiguration
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
WholeStructureEnergy
)
evaluate_rotamer_intrares_energies()
(in
FA_ElecEnergy
)
ElectronConfigurationAP
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
YHHPlanarityEnergy
)
evaluate_rotamer_intrares_energies()
(in
FA_ElecEnergyAroAll
)
ElectronConfigurationCAP
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
pHEnergy
)
evaluate_rotamer_intrares_energies()
(in
FA_ElecEnergyAroAro
)
ElectronDensity
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
SugarBackboneEnergy
)
evaluate_rotamer_intrares_energies()
(in
FA_GrpElecEnergy
)
ElectronDensityAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
DFIRE_Energy
)
evaluate_rotamer_intrares_energies()
(in
RNA_FA_ElecEnergy
)
ElectronDensityAtomwise
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
NVscore
)
evaluate_rotamer_intrares_energies()
(in
ElecDensAllAtomCenEnergy
)
ElectronDensityAtomwiseAP
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
OrbitalsScore
)
evaluate_rotamer_intrares_energies()
(in
ElecDensCenEnergy
)
ElectronDensityAtomwiseCAP
(in
rosetta.core.scoring.electron_density_atomwise._core_scoring_electron_density_atomwise_
)
eval_atom_derivative()
(in
HolesEnergy
)
evaluate_rotamer_intrares_energies()
(in
ElecDensEnergy
)
ElectronDensityCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
HolesEnergyRes
)
evaluate_rotamer_intrares_energies()
(in
FastDensEnergy
)
ElectronDensityLoader
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
SurfEnergy
)
evaluate_rotamer_intrares_energies()
(in
PattersonCorrEnergy
)
ElectronDensityLoaderAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
SurfVolEnergy
)
evaluate_rotamer_intrares_energies()
(in
ElecDensAtomwiseEnergy
)
ElectronDensityLoaderCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RG_Energy_RNA
)
evaluate_rotamer_intrares_energies()
(in
AnalyticEtableEnergy
)
ElectronDensityLoaderCreator
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_BulgeEnergy
)
evaluate_rotamer_intrares_energies()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
ElectronDensityLoaderCreatorAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_FullAtomStackingEnergy
)
evaluate_rotamer_intrares_energies()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
ElectronDensityLoaderCreatorCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_FullAtomVDW_BasePhosphate
)
evaluate_rotamer_intrares_energies()
(in
TableLookupEtableEnergy
)
ElectronDensityOptions
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_JR_SuiteEnergy
)
evaluate_rotamer_intrares_energies()
(in
ContextDependentGeometricSolEnergy
)
ElectronDensityOptionsAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_LJ_BaseEnergy
)
evaluate_rotamer_intrares_energies()
(in
ContextIndependentGeometricSolEnergy
)
ElectronDensityOptionsCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_Mg_Energy
)
evaluate_rotamer_intrares_energies()
(in
OccludedHbondSolEnergy
)
ElectronDensityOptionsCreator
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_PairwiseLowResolutionEnergy
)
evaluate_rotamer_intrares_energies()
(in
HackAroEnergy
)
ElectronDensityOptionsCreatorAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_SugarCloseEnergy
)
evaluate_rotamer_intrares_energies()
(in
HBondEnergy
)
ElectronDensityOptionsCreatorCAP
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
eval_atom_derivative()
(in
RNA_SuiteEnergy
)
evaluate_rotamer_intrares_energies()
(in
DDPscore
)
ElectrostaticpotentialGrid
(in
rosetta.protocols.pockets._protocols_pockets_
)
eval_atom_derivative()
(in
RNA_TorsionEnergy
)
evaluate_rotamer_intrares_energies()
(in
FaMPSolvEnergy
)
ElectrostaticpotentialGridAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
eval_atom_derivative()
(in
RNA_TorsionPotential
)
evaluate_rotamer_intrares_energies()
(in
MPPairEnergy
)
ElectrostaticpotentialGridCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
eval_atom_derivative()
(in
RNA_VDW_Energy
)
evaluate_rotamer_intrares_energies()
(in
CartesianBondedEnergy
)
Element
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
StackElecEnergy
)
evaluate_rotamer_intrares_energies()
(in
CenHBEnergy
)
element()
(in
AtomType
)
eval_atom_derivative()
(in
RNA_ChemicalShiftEnergy
)
evaluate_rotamer_intrares_energies()
(in
CenPairEnergy
)
element()
(in
Element
)
eval_atom_derivative()
(in
RNA_ChemicalShiftPotential
)
evaluate_rotamer_intrares_energies()
(in
CenRotPairEnergy
)
element()
(in
ElementSet
)
eval_atom_derivative()
(in
RNA_ChemicalMappingEnergy
)
evaluate_rotamer_intrares_energies()
(in
ContextDependentLRTwoBodyEnergy
)
element()
(in
MolFileIOAtom
)
eval_atom_derivative()
(in
RNA_DataBackboneEnergy
)
evaluate_rotamer_intrares_energies()
(in
ContextDependentTwoBodyEnergy
)
element_from_string()
(in
EntityElementFactory
)
eval_atom_derivative()
(in
FastSAXSEnergy
)
evaluate_rotamer_intrares_energies()
(in
ContextIndependentLRTwoBodyEnergy
)
element_index()
(in
ElementSet
)
eval_atom_derivative()
(in
SAXSEnergy
)
evaluate_rotamer_intrares_energies()
(in
ContextIndependentTwoBodyEnergy
)
element_set()
(in
ChemicalManager
)
eval_atom_derivative()
(in
symEnergy
)
evaluate_rotamer_intrares_energies()
(in
CustomAtomPairEnergy
)
element_set()
(in
ResidueType
)
eval_atom_derivative()
(in
AACompositionEnergy
)
evaluate_rotamer_intrares_energies()
(in
DNA_BaseEnergy
)
element_set()
(in
ResidueTypeSet
)
eval_atom_derivative()
(in
NatbiasSecondaryStructureEnergy
)
evaluate_rotamer_intrares_energies()
(in
Fa_MbsolvEnergy
)
element_set()
(in
GasteigerAtomTypeSet
)
eval_atom_derivative()
(in
EnsembleEnergy
)
evaluate_rotamer_intrares_energies()
(in
GaussianOverlapEnergy
)
element_set_tag()
(in
ResidueLoaderOptions
)
eval_atom_derivative()
(in
InterchainEnvEnergy
)
evaluate_rotamer_intrares_energies()
(in
GenBornEnergy
)
element_type()
(in
Atom
)
eval_atom_derivative()
(in
InterchainPairEnergy
)
evaluate_rotamer_intrares_energies()
(in
GoapEnergy
)
ElementAP
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
ResidualDipolarCouplingEnergyRigidSegments
)
evaluate_rotamer_intrares_energies()
(in
HybridVDW_Energy
)
ElementCAP
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
SpecialRotamerEnergy
)
evaluate_rotamer_intrares_energies()
(in
LK_BallEnergy
)
ElementSet
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
PCS_Energy
)
evaluate_rotamer_intrares_energies()
(in
LK_PolarNonPolarEnergy
)
ElementSetAP
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
PcsEnergy
)
evaluate_rotamer_intrares_energies()
(in
LK_hack
)
ElementSetCAP
(in
rosetta.core.chemical._core_chemical_
)
eval_atom_derivative()
(in
PCS_Energy_Ts1
)
evaluate_rotamer_intrares_energies()
(in
LongRangeTwoBodyEnergy
)
EllipsoidalRandomizationMover
(in
rosetta.protocols.docking._protocols_docking_
)
eval_atom_derivative()
(in
PCS_Energy_Ts2
)
evaluate_rotamer_intrares_energies()
(in
MMBondAngleEnergy
)
EllipsoidalRandomizationMoverAP
(in
rosetta.protocols.docking._protocols_docking_
)
eval_atom_derivative()
(in
PCS_Energy_Ts3
)
evaluate_rotamer_intrares_energies()
(in
MMBondLengthEnergy
)
EllipsoidalRandomizationMoverCAP
(in
rosetta.protocols.docking._protocols_docking_
)
eval_atom_derivative()
(in
PCS_Energy_Ts4
)
evaluate_rotamer_intrares_energies()
(in
MMLJEnergyInter
)
elongate()
(in
StrandPairing
)
eval_atom_derivative()
(in
PDDFEnergy
)
evaluate_rotamer_intrares_energies()
(in
MMLJEnergyIntra
)
elscripts
(in
rosetta.protocols
)
eval_atom_derivative_aro_aro()
(in
FA_ElecEnergyAroAll
)
evaluate_rotamer_intrares_energies()
(in
MMTorsionEnergy
)
else_expression()
(in
ITEExpression
)
eval_atom_derivative_aro_aro()
(in
FA_ElecEnergyAroAro
)
evaluate_rotamer_intrares_energies()
(in
MembraneCenPairEnergy
)
EMapVector
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative_base_base()
(in
RNA_LowResolutionPotential
)
evaluate_rotamer_intrares_energies()
(in
PairEnergy
)
EMapVectorAP
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative_intra_RNA()
(in
LK_PolarNonPolarEnergy
)
evaluate_rotamer_intrares_energies()
(in
PeptideBondEnergy
)
EMapVectorCAP
(in
rosetta.core.scoring._core_scoring_
)
eval_atom_derivative_RNA()
(in
RNA_FA_ElecEnergy
)
evaluate_rotamer_intrares_energies()
(in
PoissonBoltzmannEnergy
)
Embedding
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
eval_atom_derivative_rna_backbone_backbone()
(in
RNA_LowResolutionPotential
)
evaluate_rotamer_intrares_energies()
(in
ProClosureEnergy
)
embedding()
(in
Embedding
)
eval_atom_derivative_rna_base_backbone()
(in
RNA_LowResolutionPotential
)
evaluate_rotamer_intrares_energies()
(in
Rama2BOffsetEnergy
)
EmbeddingAP
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
eval_atom_derivative_rna_repulsive()
(in
RNA_LowResolutionPotential
)
evaluate_rotamer_intrares_energies()
(in
RamachandranEnergy2B
)
EmbeddingCAP
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
eval_atom_derivatives_for_minedge()
(in
rosetta.core.scoring._core_scoring_
)
evaluate_rotamer_intrares_energies()
(in
ShortRangeTwoBodyEnergy
)
EmbeddingDef
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
eval_atom_derivatives_for_minnode()
(in
rosetta.core.scoring._core_scoring_
)
evaluate_rotamer_intrares_energies()
(in
SmoothCenPairEnergy
)
EmbeddingDefAP
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
eval_atom_energy()
(in
GeometricSolEnergyEvaluator
)
evaluate_rotamer_intrares_energies()
(in
SuckerEnergy
)
EmbeddingDefCAP
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
eval_atom_energy()
(in
RNA_LJ_BaseEnergy
)
evaluate_rotamer_intrares_energies()
(in
TwoBodyEnergy
)
embeddings()
(in
Embedding
)
eval_base_pair_derivative()
(in
DNA_BasePotential
)
evaluate_rotamer_intrares_energies()
(in
WaterAdductHBondEnergy
)
Emitter
(in
rosetta.basic._basic_
)
eval_base_pair_Z_scores()
(in
DNA_BasePotential
)
evaluate_rotamer_intrares_energies()
(in
DFIRE_Energy
)
EmitterAP
(in
rosetta.basic._basic_
)
eval_base_step_derivative()
(in
DNA_BasePotential
)
evaluate_rotamer_intrares_energies()
(in
OrbitalsScore
)
EmitterCAP
(in
rosetta.basic._basic_
)
eval_base_step_Z_scores()
(in
DNA_BasePotential
)
evaluate_rotamer_intrares_energies()
(in
RNA_FullAtomStackingEnergy
)
EMPTY
(in
ConnectionEvent
)
eval_bbbb_sr2b_energies()
(in
rosetta.core.scoring._core_scoring_
)
evaluate_rotamer_intrares_energies()
(in
RNA_JR_SuiteEnergy
)
EMPTY
(in
Tag
)
eval_bbsc_sr2b_energies()
(in
rosetta.core.scoring._core_scoring_
)
evaluate_rotamer_intrares_energies()
(in
RNA_LJ_BaseEnergy
)
EMPTY
(in
IdentityEvent
)
eval_cd_1b()
(in
DockingScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
RNA_Mg_Energy
)
EMPTY
(in
Tag
)
eval_cd_1b()
(in
MinScoreScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
RNA_PairwiseLowResolutionEnergy
)
EMPTY
(in
LengthEvent
)
eval_cd_1b()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
RNA_SuiteEnergy
)
EMPTY
(in
Tag
)
eval_cd_1b()
(in
SymmetricScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
RNA_TorsionEnergy
)
EMPTY
(in
rosetta.core.pack.task._core_pack_task_
)
eval_cd_1b()
(in
OtherContextScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
RNA_VDW_Energy
)
empty()
(in
Conformation
)
eval_cd_2b()
(in
DockingScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
StackElecEnergy
)
empty()
(in
ConstantLengthFragSet
)
eval_cd_2b()
(in
MinScoreScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
RNA_DataBackboneEnergy
)
empty()
(in
FragSet
)
eval_cd_2b()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
symEnergy
)
empty()
(in
FragSetCollection
)
eval_cd_2b()
(in
SymmetricScoreFunction
)
evaluate_rotamer_intrares_energies()
(in
InterchainPairEnergy
)
empty()
(in
OrderedFragSet
)
eval_cd_2b()
(in
OtherContextScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
ScoreFunction
)
empty()
(in
AtomID_Map_T_bool_T
)
eval_cd_2b_bb_bb()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
CarbonHBondEnergy
)
empty()
(in
AtomID_Map_T_core_id_AtomID_T
)
eval_cd_2b_bb_sc()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
ConstraintsEnergy
)
empty()
(in
AtomID_Map_T_double_T
)
eval_cd_2b_residues()
(in
ScoringSecMatchRPE
)
evaluate_rotamer_intrares_energy_maps()
(in
FullatomCustomPairDistanceEnergy
)
empty()
(in
AtomID_Map_T_numeric_xyzVector_T_double_T__T
)
eval_cd_2b_sc_sc()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
CentroidDisulfideEnergy
)
empty()
(in
NamedAtomID_Map_T_core_id_NamedAtomID_T
)
eval_cd_intrares_energy()
(in
DockingScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
DisulfideMatchingEnergy
)
empty()
(in
AtomTree
)
eval_cd_intrares_energy()
(in
MinScoreScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
FullatomDisulfideEnergy
)
empty()
(in
FoldTree
)
eval_cd_intrares_energy()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
DNATorsionEnergy
)
empty()
(in
ResidueCoordinateChangeList
)
eval_cd_intrares_energy()
(in
SymmetricScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
FA_ElecEnergy
)
empty()
(in
Pose
)
eval_cd_intrares_energy()
(in
OtherContextScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
FA_ElecEnergyAroAll
)
empty()
(in
DenseEnergyContainer
)
eval_ci_1b()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
FA_ElecEnergyAroAro
)
empty()
(in
LREnergyContainer
)
eval_ci_2b()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
FA_GrpElecEnergy
)
empty()
(in
OneToAllEnergyContainer
)
eval_ci_2b_bb_bb()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_FA_ElecEnergy
)
empty()
(in
PeptideBondedEnergyContainer
)
eval_ci_2b_bb_sc()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
ElecDensAllAtomCenEnergy
)
empty()
(in
CstEnergyContainer
)
eval_ci_2b_sc_sc()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
ElecDensCenEnergy
)
empty()
(in
CentroidDisulfideEnergyContainer
)
eval_ci_intrares_energy()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
ElecDensEnergy
)
empty()
(in
DisulfideMatchingEnergyContainer
)
eval_cubic_polynomial()
(in
Etable
)
evaluate_rotamer_intrares_energy_maps()
(in
FastDensEnergy
)
empty()
(in
FullatomDisulfideEnergyContainer
)
eval_d_lk_fraction_dr_over_r()
(in
LK_BallEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
PattersonCorrEnergy
)
empty()
(in
TokenSet
)
eval_dE_dR_over_r()
(in
AnalyticEtableEvaluator
)
evaluate_rotamer_intrares_energy_maps()
(in
ElecDensAtomwiseEnergy
)
empty()
(in
CDRClusterSet
)
eval_dE_dR_over_r()
(in
TableLookupEvaluator
)
evaluate_rotamer_intrares_energy_maps()
(in
AnalyticEtableEnergy
)
empty()
(in
DnaChains
)
eval_dE_dR_over_r_v()
(in
AnalyticEtableEvaluator
)
evaluate_rotamer_intrares_energy_maps()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
empty()
(in
BuildManager
)
eval_dE_dR_over_r_v()
(in
EtableEvaluator
)
evaluate_rotamer_intrares_energy_maps()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
empty()
(in
ChainedSolutionList
)
eval_dE_dR_over_r_v()
(in
TableLookupEvaluator
)
evaluate_rotamer_intrares_energy_maps()
(in
TableLookupEtableEnergy
)
empty()
(in
LoopMoverGroup
)
eval_desolvation_derivs_no_count_pair()
(in
LK_BallEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
ContextDependentGeometricSolEnergy
)
empty()
(in
Loops
)
eval_dfa_elecE_dr_over_r()
(in
Coulomb
)
evaluate_rotamer_intrares_energy_maps()
(in
ContextIndependentGeometricSolEnergy
)
empty()
(in
WUQueue
)
eval_dfire_pair_energy()
(in
DFIRE_Potential
)
evaluate_rotamer_intrares_energy_maps()
(in
OccludedHbondSolEnergy
)
empty()
(in
FileName
)
EVAL_DFUNC
(in
rosetta.protocols.optimize_weights
)
evaluate_rotamer_intrares_energy_maps()
(in
HackAroEnergy
)
empty()
(in
PathName
)
EVAL_DFUNC
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
evaluate_rotamer_intrares_energy_maps()
(in
HBondEnergy
)
empty()
(in
Link
)
EVAL_DFUNC
(in
OptEMultifuncMPIMessages
)
evaluate_rotamer_intrares_energy_maps()
(in
DDPscore
)
empty_clone()
(in
ConstantLengthFragSet
)
eval_dipolar()
(in
ResidualDipolarCouplingEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
FaMPSolvEnergy
)
empty_clone()
(in
FragSet
)
eval_dna_bform_bb_torsion_score_residue()
(in
DNABFormPotential
)
evaluate_rotamer_intrares_energy_maps()
(in
MPPairEnergy
)
empty_clone()
(in
FragSetCollection
)
eval_dna_bform_chi_torsion_score_residue()
(in
DNABFormPotential
)
evaluate_rotamer_intrares_energy_maps()
(in
CartesianBondedEnergy
)
empty_clone()
(in
OrderedFragSet
)
eval_dof_deriv_for_minnode()
(in
rosetta.core.scoring._core_scoring_
)
evaluate_rotamer_intrares_energy_maps()
(in
CenHBEnergy
)
empty_clone()
(in
AmbiguousConstraint
)
eval_dof_derivative()
(in
DunbrackEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
CenPairEnergy
)
empty_clone()
(in
AmbiguousNMRConstraint
)
eval_dof_derivative()
(in
CenRotDunEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
CenRotPairEnergy
)
empty_clone()
(in
FabConstraint
)
eval_dof_derivative()
(in
ScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
ContextDependentLRTwoBodyEnergy
)
empty_clone()
(in
KofNConstraint
)
eval_dof_derivative()
(in
ConstraintsEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
ContextDependentTwoBodyEnergy
)
empty_clone()
(in
MultiConstraint
)
eval_dof_derivative()
(in
FullatomDisulfideEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
ContextIndependentLRTwoBodyEnergy
)
empty_clone()
(in
SiteConstraint
)
eval_dof_derivative()
(in
DNAChiEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
ContextIndependentTwoBodyEnergy
)
empty_clone()
(in
SiteConstraintResidues
)
eval_dof_derivative()
(in
DNATorsionEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
CustomAtomPairEnergy
)
empty_clone()
(in
AmbiguousMultiConstraint
)
eval_dof_derivative()
(in
NMerPSSMEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
DNA_BaseEnergy
)
empty_pose()
(in
MatchCollisionFilter
)
eval_dof_derivative()
(in
NMerRefEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
Fa_MbsolvEnergy
)
empty_record()
(in
PDBInfo
)
eval_dof_derivative()
(in
NMerSVMEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
GaussianOverlapEnergy
)
empty_sfxn()
(in
MatchCollisionFilter
)
eval_dof_derivative()
(in
P_AA_Energy
)
evaluate_rotamer_intrares_energy_maps()
(in
GenBornEnergy
)
EMPTYAP
(in
rosetta.core.pack.task._core_pack_task_
)
eval_dof_derivative()
(in
P_AA_pp_Energy
)
evaluate_rotamer_intrares_energy_maps()
(in
GoapEnergy
)
EMPTYCAP
(in
rosetta.core.pack.task._core_pack_task_
)
eval_dof_derivative()
(in
RamachandranEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
HybridVDW_Energy
)
EmptyVertexData
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
eval_dof_derivative()
(in
RamachandranEnergy2B
)
evaluate_rotamer_intrares_energy_maps()
(in
LK_BallEnergy
)
EmptyVertexDataAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
eval_dof_derivative()
(in
ReferenceEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
LK_PolarNonPolarEnergy
)
EmptyVertexDataCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
eval_dof_derivative()
(in
ReferenceEnergyNoncanonical
)
evaluate_rotamer_intrares_energy_maps()
(in
LK_hack
)
enable()
(in
ResidueTorsionRestraints
)
eval_dof_derivative()
(in
SequenceDependentRefEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
LongRangeTwoBodyEnergy
)
enable_autotemp()
(in
RationalMonteCarlo
)
eval_dof_derivative()
(in
WaterAdductIntraEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
MMBondAngleEnergy
)
enable_benchmark_mode()
(in
CloseOneCDRLoop
)
eval_dof_derivative()
(in
pHEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
MMBondLengthEnergy
)
enable_benchmark_mode()
(in
GraftOneCDRLoop
)
eval_dof_derivative()
(in
SymmetricScoreFunction
)
evaluate_rotamer_intrares_energy_maps()
(in
MMLJEnergyInter
)
enable_benchmark_mode()
(in
GraftedStemOptimizer
)
eval_dof_derivative()
(in
SpecialRotamerEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
MMLJEnergyIntra
)
enable_benchmark_mode()
(in
ModelCDRH3
)
eval_filters()
(in
PointMutationCalculator
)
evaluate_rotamer_intrares_energy_maps()
(in
MMTorsionEnergy
)
enable_benchmark_mode()
(in
CDRH3Modeler
)
eval_filters()
(in
MatDesPointMutationCalculator
)
evaluate_rotamer_intrares_energy_maps()
(in
MembraneCenPairEnergy
)
enable_benchmark_mode()
(in
CloseOneMover
)
EVAL_FUNC
(in
rosetta.protocols.optimize_weights
)
evaluate_rotamer_intrares_energy_maps()
(in
PairEnergy
)
enable_benchmark_mode()
(in
GraftMover
)
EVAL_FUNC
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
evaluate_rotamer_intrares_energy_maps()
(in
PeptideBondEnergy
)
enable_benchmark_mode()
(in
GraftOneMover
)
EVAL_FUNC
(in
OptEMultifuncMPIMessages
)
evaluate_rotamer_intrares_energy_maps()
(in
PoissonBoltzmannEnergy
)
enable_benchmark_mode()
(in
LoopRlxMover
)
eval_impl()
(in
ABEGOEval
)
evaluate_rotamer_intrares_energy_maps()
(in
ProClosureEnergy
)
enable_build_stage()
(in
LoopModeler
)
eval_impl()
(in
EnergyEval
)
evaluate_rotamer_intrares_energy_maps()
(in
Rama2BOffsetEnergy
)
enable_centroid_stage()
(in
LoopModeler
)
eval_impl()
(in
IdentityEval
)
evaluate_rotamer_intrares_energy_maps()
(in
RamachandranEnergy2B
)
enable_custom_variant_types()
(in
ResidueProperties
)
eval_impl()
(in
VallFragmentEval
)
evaluate_rotamer_intrares_energy_maps()
(in
ShortRangeTwoBodyEnergy
)
enable_custom_variant_types()
(in
ResidueType
)
eval_intrares_atom_derivative()
(in
Constraints
)
evaluate_rotamer_intrares_energy_maps()
(in
SmoothCenPairEnergy
)
enable_end_bias_check()
(in
ClassicFragmentMover
)
eval_intrares_derivatives()
(in
CarbonHBondEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
SuckerEnergy
)
enable_fullatom_stage()
(in
LoopModeler
)
eval_intrares_derivatives()
(in
ConstraintsEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
TwoBodyEnergy
)
enable_graft_h1()
(in
GraftMover
)
eval_intrares_derivatives()
(in
FullatomCustomPairDistanceEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
WaterAdductHBondEnergy
)
enable_graft_h2()
(in
GraftMover
)
eval_intrares_derivatives()
(in
CentroidDisulfideEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
DFIRE_Energy
)
enable_graft_h3()
(in
GraftMover
)
eval_intrares_derivatives()
(in
DisulfideMatchingEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
OrbitalsScore
)
enable_graft_l1()
(in
GraftMover
)
eval_intrares_derivatives()
(in
FullatomDisulfideEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_FullAtomStackingEnergy
)
enable_graft_l2()
(in
GraftMover
)
eval_intrares_derivatives()
(in
DNATorsionEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_JR_SuiteEnergy
)
enable_graft_l3()
(in
GraftMover
)
eval_intrares_derivatives()
(in
FA_ElecEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_LJ_BaseEnergy
)
enable_ignorefinished()
(in
BaseJobDistributor
)
eval_intrares_derivatives()
(in
FA_ElecEnergyAroAll
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_Mg_Energy
)
enable_inprogress()
(in
BaseJobDistributor
)
eval_intrares_derivatives()
(in
FA_ElecEnergyAroAro
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_PairwiseLowResolutionEnergy
)
enable_max_residue_count()
(in
ResidueCountFilter
)
eval_intrares_derivatives()
(in
FA_GrpElecEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_SuiteEnergy
)
enable_min_residue_count()
(in
ResidueCountFilter
)
eval_intrares_derivatives()
(in
RNA_FA_ElecEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_TorsionEnergy
)
enable_output()
(in
BaseJobDistributor
)
eval_intrares_derivatives()
(in
ElecDensAllAtomCenEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_VDW_Energy
)
enable_sampling_of_loop_takeoff()
(in
rosetta.protocols.stepwise.modeler.protein.loop_close._protocols_stepwise_modeler_protein_loop_close_
)
eval_intrares_derivatives()
(in
ElecDensCenEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
StackElecEnergy
)
enabled()
(in
PDBOutput
)
eval_intrares_derivatives()
(in
ElecDensEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
RNA_DataBackboneEnergy
)
encode6bit()
(in
rosetta.utility._utility_
)
eval_intrares_derivatives()
(in
FastDensEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
symEnergy
)
encode_24_to_32()
(in
rosetta.utility._utility_
)
eval_intrares_derivatives()
(in
PattersonCorrEnergy
)
evaluate_rotamer_intrares_energy_maps()
(in
InterchainPairEnergy
)
encode_aa_string()
(in
NMerSVMEnergy
)
eval_intrares_derivatives()
(in
ElecDensAtomwiseEnergy
)
evaluate_rotamer_pair_energies()
(in
ScoreFunction
)
encode_nmer()
(in
NMerSVMEnergy
)
eval_intrares_derivatives()
(in
AnalyticEtableEnergy
)
evaluate_rotamer_pair_energies()
(in
CarbonHBondEnergy
)
encode_wtd_avg_aa_string()
(in
NMerSVMEnergy
)
eval_intrares_derivatives()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
evaluate_rotamer_pair_energies()
(in
ConstraintsEnergy
)
end
(in
AlignMove
)
eval_intrares_derivatives()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
evaluate_rotamer_pair_energies()
(in
FullatomCustomPairDistanceEnergy
)
end
(in
rosetta.core.sequence._core_sequence_
)
eval_intrares_derivatives()
(in
TableLookupEtableEnergy
)
evaluate_rotamer_pair_energies()
(in
CentroidDisulfideEnergy
)
end
(in
rosetta.core.sequence
)
eval_intrares_derivatives()
(in
ContextDependentGeometricSolEnergy
)
evaluate_rotamer_pair_energies()
(in
DisulfideMatchingEnergy
)
END
(in
rosetta.protocols.abinitio.abscript
)
eval_intrares_derivatives()
(in
ContextIndependentGeometricSolEnergy
)
evaluate_rotamer_pair_energies()
(in
FullatomDisulfideEnergy
)
END
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
eval_intrares_derivatives()
(in
GeometricSolEnergyEvaluator
)
evaluate_rotamer_pair_energies()
(in
DNATorsionEnergy
)
END
(in
StageID
)
eval_intrares_derivatives()
(in
OccludedHbondSolEnergy
)
evaluate_rotamer_pair_energies()
(in
FA_ElecEnergy
)
end()
(in
Emitter
)
eval_intrares_derivatives()
(in
HackAroEnergy
)
evaluate_rotamer_pair_energies()
(in
FA_ElecEnergyAroAll
)
end()
(in
DataMap
)
eval_intrares_derivatives()
(in
HBondEnergy
)
evaluate_rotamer_pair_energies()
(in
FA_ElecEnergyAroAro
)
end()
(in
WriteableCacheableMap
)
eval_intrares_derivatives()
(in
DDPscore
)
evaluate_rotamer_pair_energies()
(in
FA_GrpElecEnergy
)
end()
(in
Span
)
eval_intrares_derivatives()
(in
FaMPSolvEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_FA_ElecEnergy
)
end()
(in
DofPassport
)
eval_intrares_derivatives()
(in
MPPairEnergy
)
evaluate_rotamer_pair_energies()
(in
ElecDensAllAtomCenEnergy
)
end()
(in
ConstantLengthFragSet
)
eval_intrares_derivatives()
(in
CartesianBondedEnergy
)
evaluate_rotamer_pair_energies()
(in
ElecDensCenEnergy
)
end()
(in
FragSet
)
eval_intrares_derivatives()
(in
CenHBEnergy
)
evaluate_rotamer_pair_energies()
(in
ElecDensEnergy
)
end()
(in
FragSetCollection
)
eval_intrares_derivatives()
(in
CenPairEnergy
)
evaluate_rotamer_pair_energies()
(in
FastDensEnergy
)
end()
(in
Frame
)
eval_intrares_derivatives()
(in
CenRotPairEnergy
)
evaluate_rotamer_pair_energies()
(in
PattersonCorrEnergy
)
end()
(in
OrderedFragSet
)
eval_intrares_derivatives()
(in
ContextDependentLRTwoBodyEnergy
)
evaluate_rotamer_pair_energies()
(in
ElecDensAtomwiseEnergy
)
end()
(in
Book_T_core_fragment_picking_old_vall_VallResidues_T
)
eval_intrares_derivatives()
(in
ContextDependentTwoBodyEnergy
)
evaluate_rotamer_pair_energies()
(in
AnalyticEtableEnergy
)
end()
(in
Library_T_core_fragment_picking_old_vall_VallSections_T
)
eval_intrares_derivatives()
(in
ContextIndependentLRTwoBodyEnergy
)
evaluate_rotamer_pair_energies()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
end()
(in
EdgeList
)
eval_intrares_derivatives()
(in
ContextIndependentTwoBodyEnergy
)
evaluate_rotamer_pair_energies()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
end()
(in
RawFileData
)
eval_intrares_derivatives()
(in
CustomAtomPairEnergy
)
evaluate_rotamer_pair_energies()
(in
TableLookupEtableEnergy
)
end()
(in
SilentFileData
)
eval_intrares_derivatives()
(in
DNA_BaseEnergy
)
evaluate_rotamer_pair_energies()
(in
ContextDependentGeometricSolEnergy
)
end()
(in
FoldTree
)
eval_intrares_derivatives()
(in
Fa_MbsolvEnergy
)
evaluate_rotamer_pair_energies()
(in
ContextIndependentGeometricSolEnergy
)
end()
(in
MinimizerMap
)
eval_intrares_derivatives()
(in
GaussianOverlapEnergy
)
evaluate_rotamer_pair_energies()
(in
OccludedHbondSolEnergy
)
end()
(in
SymMinimizerMap
)
eval_intrares_derivatives()
(in
GenBornEnergy
)
evaluate_rotamer_pair_energies()
(in
HackAroEnergy
)
end()
(in
FixbbRotamerSets
)
eval_intrares_derivatives()
(in
GoapEnergy
)
evaluate_rotamer_pair_energies()
(in
HBondEnergy
)
end()
(in
RotamerSet
)
eval_intrares_derivatives()
(in
HybridVDW_Energy
)
evaluate_rotamer_pair_energies()
(in
DDPscore
)
end()
(in
RotamerSet_
)
eval_intrares_derivatives()
(in
LK_BallEnergy
)
evaluate_rotamer_pair_energies()
(in
FaMPSolvEnergy
)
end()
(in
RotamerSets
)
eval_intrares_derivatives()
(in
LK_PolarNonPolarEnergy
)
evaluate_rotamer_pair_energies()
(in
MPPairEnergy
)
end()
(in
RotamerSubset
)
eval_intrares_derivatives()
(in
LK_hack
)
evaluate_rotamer_pair_energies()
(in
CartesianBondedEnergy
)
end()
(in
RotamerSubsets
)
eval_intrares_derivatives()
(in
LongRangeTwoBodyEnergy
)
evaluate_rotamer_pair_energies()
(in
CenHBEnergy
)
end()
(in
SymmetricRotamerSet_
)
eval_intrares_derivatives()
(in
MMBondAngleEnergy
)
evaluate_rotamer_pair_energies()
(in
CenPairEnergy
)
end()
(in
TaskFactory
)
eval_intrares_derivatives()
(in
MMBondLengthEnergy
)
evaluate_rotamer_pair_energies()
(in
CenRotPairEnergy
)
end()
(in
Constraints
)
eval_intrares_derivatives()
(in
MMLJEnergyInter
)
evaluate_rotamer_pair_energies()
(in
ContextDependentLRTwoBodyEnergy
)
end()
(in
ResidueConstraints
)
eval_intrares_derivatives()
(in
MMLJEnergyIntra
)
evaluate_rotamer_pair_energies()
(in
ContextDependentTwoBodyEnergy
)
end()
(in
StrandPairingSet
)
eval_intrares_derivatives()
(in
MMTorsionEnergy
)
evaluate_rotamer_pair_energies()
(in
ContextIndependentLRTwoBodyEnergy
)
end()
(in
trace
)
eval_intrares_derivatives()
(in
MembraneCenPairEnergy
)
evaluate_rotamer_pair_energies()
(in
ContextIndependentTwoBodyEnergy
)
end()
(in
MultiDimensionalHistogram
)
eval_intrares_derivatives()
(in
PairEnergy
)
evaluate_rotamer_pair_energies()
(in
CustomAtomPairEnergy
)
end()
(in
xyzStripeHash
)
eval_intrares_derivatives()
(in
PeptideBondEnergy
)
evaluate_rotamer_pair_energies()
(in
DNA_BaseEnergy
)
end()
(in
KDPointList
)
eval_intrares_derivatives()
(in
PoissonBoltzmannEnergy
)
evaluate_rotamer_pair_energies()
(in
Fa_MbsolvEnergy
)
end()
(in
PairingStatistics
)
eval_intrares_derivatives()
(in
ProClosureEnergy
)
evaluate_rotamer_pair_energies()
(in
GaussianOverlapEnergy
)
end()
(in
Templates
)
eval_intrares_derivatives()
(in
Rama2BOffsetEnergy
)
evaluate_rotamer_pair_energies()
(in
GenBornEnergy
)
end()
(in
Anchor
)
eval_intrares_derivatives()
(in
RamachandranEnergy2B
)
evaluate_rotamer_pair_energies()
(in
GoapEnergy
)
end()
(in
CDRCluster
)
eval_intrares_derivatives()
(in
ShortRangeTwoBodyEnergy
)
evaluate_rotamer_pair_energies()
(in
HybridVDW_Energy
)
end()
(in
DnaChains
)
eval_intrares_derivatives()
(in
SmoothCenPairEnergy
)
evaluate_rotamer_pair_energies()
(in
LK_BallEnergy
)
end()
(in
Environment
)
eval_intrares_derivatives()
(in
SuckerEnergy
)
evaluate_rotamer_pair_energies()
(in
LK_PolarNonPolarEnergy
)
end()
(in
HelicalFragment
)
eval_intrares_derivatives()
(in
TwoBodyEnergy
)
evaluate_rotamer_pair_energies()
(in
LK_hack
)
end()
(in
CompoundFilter
)
eval_intrares_derivatives()
(in
WaterAdductHBondEnergy
)
evaluate_rotamer_pair_energies()
(in
LongRangeTwoBodyEnergy
)
end()
(in
HSSTripletSet
)
eval_intrares_derivatives()
(in
DFIRE_Energy
)
evaluate_rotamer_pair_energies()
(in
MMBondAngleEnergy
)
end()
(in
SS_Base
)
eval_intrares_derivatives()
(in
OrbitalsScore
)
evaluate_rotamer_pair_energies()
(in
MMBondLengthEnergy
)
end()
(in
StrandPairingSet
)
eval_intrares_derivatives()
(in
RNA_FullAtomStackingEnergy
)
evaluate_rotamer_pair_energies()
(in
MMLJEnergyInter
)
end()
(in
FlexbbRotamerSet
)
eval_intrares_derivatives()
(in
RNA_JR_SuiteEnergy
)
evaluate_rotamer_pair_energies()
(in
MMLJEnergyIntra
)
end()
(in
BuildManager
)
eval_intrares_derivatives()
(in
RNA_LJ_BaseEnergy
)
evaluate_rotamer_pair_energies()
(in
MMTorsionEnergy
)
end()
(in
GraftMoverBase
)
eval_intrares_derivatives()
(in
RNA_Mg_Energy
)
evaluate_rotamer_pair_energies()
(in
MembraneCenPairEnergy
)
end()
(in
DeleteRegionMover
)
eval_intrares_derivatives()
(in
RNA_PairwiseLowResolutionEnergy
)
evaluate_rotamer_pair_energies()
(in
PairEnergy
)
end()
(in
InsertPoseIntoPoseMover
)
eval_intrares_derivatives()
(in
RNA_SuiteEnergy
)
evaluate_rotamer_pair_energies()
(in
PeptideBondEnergy
)
end()
(in
KeepRegionMover
)
eval_intrares_derivatives()
(in
RNA_TorsionEnergy
)
evaluate_rotamer_pair_energies()
(in
PoissonBoltzmannEnergy
)
end()
(in
HotspotStubSet
)
eval_intrares_derivatives()
(in
RNA_VDW_Energy
)
evaluate_rotamer_pair_energies()
(in
ProClosureEnergy
)
end()
(in
Interval
)
eval_intrares_derivatives()
(in
StackElecEnergy
)
evaluate_rotamer_pair_energies()
(in
Rama2BOffsetEnergy
)
end()
(in
JumpSelector
)
eval_intrares_derivatives()
(in
RNA_DataBackboneEnergy
)
evaluate_rotamer_pair_energies()
(in
RamachandranEnergy2B
)
end()
(in
JumpSetup
)
eval_intrares_derivatives()
(in
symEnergy
)
evaluate_rotamer_pair_energies()
(in
ShortRangeTwoBodyEnergy
)
end()
(in
ResiduePairJumpSetup
)
eval_intrares_derivatives()
(in
InterchainPairEnergy
)
evaluate_rotamer_pair_energies()
(in
SmoothCenPairEnergy
)
end()
(in
ChainedSolutionList
)
eval_intrares_energy()
(in
ScoreFunction
)
evaluate_rotamer_pair_energies()
(in
SuckerEnergy
)
end()
(in
MinimizeLigand
)
eval_intrares_energy()
(in
CarbonHBondEnergy
)
evaluate_rotamer_pair_energies()
(in
TwoBodyEnergy
)
end()
(in
Loops
)
eval_intrares_energy()
(in
ConstraintSet
)
evaluate_rotamer_pair_energies()
(in
WaterAdductHBondEnergy
)
end()
(in
MotifLibrary
)
eval_intrares_energy()
(in
ConstraintsEnergy
)
evaluate_rotamer_pair_energies()
(in
DFIRE_Energy
)
end()
(in
PlacementAuctionMover
)
eval_intrares_energy()
(in
FullatomCustomPairDistanceEnergy
)
evaluate_rotamer_pair_energies()
(in
OrbitalsScore
)
end()
(in
TryRotamers
)
eval_intrares_energy()
(in
CentroidDisulfideEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_FullAtomStackingEnergy
)
end()
(in
RBResidueRange
)
eval_intrares_energy()
(in
DisulfideMatchingEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_JR_SuiteEnergy
)
end()
(in
ParsedProtocol
)
eval_intrares_energy()
(in
FullatomDisulfideEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_LJ_BaseEnergy
)
end()
(in
FragQualCalculator
)
eval_intrares_energy()
(in
DNATorsionEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_Mg_Energy
)
end()
(in
SilentStructStore
)
eval_intrares_energy()
(in
FA_ElecEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_PairwiseLowResolutionEnergy
)
end()
(in
WorkUnitQueue
)
eval_intrares_energy()
(in
FA_ElecEnergyAroAll
)
evaluate_rotamer_pair_energies()
(in
RNA_SuiteEnergy
)
end1()
(in
StrandPairing
)
eval_intrares_energy()
(in
FA_ElecEnergyAroAro
)
evaluate_rotamer_pair_energies()
(in
RNA_TorsionEnergy
)
end1()
(in
StrandPairing
)
eval_intrares_energy()
(in
FA_GrpElecEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_VDW_Energy
)
end2()
(in
StrandPairing
)
eval_intrares_energy()
(in
RNA_FA_ElecEnergy
)
evaluate_rotamer_pair_energies()
(in
StackElecEnergy
)
END_ABINITIO
(in
rosetta
)
eval_intrares_energy()
(in
ElecDensAllAtomCenEnergy
)
evaluate_rotamer_pair_energies()
(in
RNA_DataBackboneEnergy
)
END_ABINITIO
(in
rosetta.protocols.abinitio
)
eval_intrares_energy()
(in
ElecDensCenEnergy
)
evaluate_rotamer_pair_energies()
(in
symEnergy
)
END_ABINITIO
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
eval_intrares_energy()
(in
ElecDensEnergy
)
evaluate_rotamer_pair_energies()
(in
InterchainPairEnergy
)
END_ABINITIO
(in
StageID
)
eval_intrares_energy()
(in
FastDensEnergy
)
evaluate_silent_struct()
(in
EvaluatedArchive
)
end_atomid()
(in
BackrubSegment
)
eval_intrares_energy()
(in
PattersonCorrEnergy
)
EvaluatedArchive
(in
rosetta.protocols.jd2.archive._protocols_jd2_archive_
)
end_atoms1()
(in
BackrubSegment
)
eval_intrares_energy()
(in
ElecDensAtomwiseEnergy
)
EvaluatedArchiveAP
(in
rosetta.protocols.jd2.archive._protocols_jd2_archive_
)
end_atoms2()
(in
BackrubSegment
)
eval_intrares_energy()
(in
AnalyticEtableEnergy
)
EvaluatedArchiveCAP
(in
rosetta.protocols.jd2.archive._protocols_jd2_archive_
)
end_bias()
(in
ClassicFragmentMover
)
eval_intrares_energy()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
EvaluatedTrialMover
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
end_bias_check()
(in
ClassicFragmentMover
)
eval_intrares_energy()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
EvaluatedTrialMoverAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
end_bias_check_enabled()
(in
ClassicFragmentMover
)
eval_intrares_energy()
(in
TableLookupEtableEnergy
)
EvaluatedTrialMoverCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
end_bias_probabilities()
(in
rosetta.protocols.medal._protocols_medal_
)
eval_intrares_energy()
(in
ContextDependentGeometricSolEnergy
)
evaluation
(in
rosetta.protocols
)
end_bond_angle_key()
(in
BackrubSegment
)
eval_intrares_energy()
(in
ContextIndependentGeometricSolEnergy
)
evaluator()
(in
Protocol
)
end_const()
(in
RawFileData
)
eval_intrares_energy()
(in
GeometricSolEnergyEvaluator
)
evaluator_name()
(in
MatcherTask
)
end_critical_section()
(in
BaseJobDistributor
)
eval_intrares_energy()
(in
OccludedHbondSolEnergy
)
EvaluatorCreator
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
end_list()
(in
Emitter
)
eval_intrares_energy()
(in
HackAroEnergy
)
EvaluatorCreatorAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
end_map()
(in
Emitter
)
eval_intrares_energy()
(in
HBondEnergy
)
EvaluatorCreatorCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
end_of_effect_list
(in
rosetta.protocols.generalized_kinematic_closure.perturber._protocols_generalized_kinematic_closure_perturber_
)
eval_intrares_energy()
(in
DDPscore
)
EvaluatorFactory
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
end_of_effect_list
(in
perturber_effect
)
eval_intrares_energy()
(in
FaMPSolvEnergy
)
EvaluatorFactoryAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
end_of_effect_list
(in
rosetta.protocols.generalized_kinematic_closure.perturber
)
eval_intrares_energy()
(in
MPPairEnergy
)
EvaluatorFactoryCAP
(in
rosetta.protocols.evaluation._protocols_evaluation_
)
end_of_filter_list
(in
rosetta.protocols.generalized_kinematic_closure.filter._protocols_generalized_kinematic_closure_filter_
)
eval_intrares_energy()
(in
CartesianBondedEnergy
)
evaluators()
(in
MetaPoseEvaluator
)
end_of_filter_list
(in
filter_type
)
eval_intrares_energy()
(in
CenHBEnergy
)
evaluators()
(in
JobOutputter
)
end_of_filter_list
(in
rosetta.protocols.generalized_kinematic_closure.filter
)
eval_intrares_energy()
(in
CenPairEnergy
)
evaluators()
(in
EvaluatedArchive
)
END_OF_MINIMIZATION
(in
rosetta.protocols.optimize_weights
)
eval_intrares_energy()
(in
CenRotPairEnergy
)
Event
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
END_OF_MINIMIZATION
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
eval_intrares_energy()
(in
ContextDependentLRTwoBodyEnergy
)
EventAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
END_OF_MINIMIZATION
(in
OptEMultifuncMPIMessages
)
eval_intrares_energy()
(in
ContextDependentTwoBodyEnergy
)
EventCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
end_of_queue()
(in
recent_history_queue
)
eval_intrares_energy()
(in
ContextIndependentLRTwoBodyEnergy
)
events()
(in
LengthEventCollector
)
end_of_score_type_enumeration
(in
ScoreType
)
eval_intrares_energy()
(in
ContextIndependentTwoBodyEnergy
)
EventType
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
end_of_score_type_enumeration
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy()
(in
CustomAtomPairEnergy
)
evolve_next_generation()
(in
GeneticAlgorithm
)
end_of_score_type_enumeration
(in
rosetta.core.scoring
)
eval_intrares_energy()
(in
DNA_BaseEnergy
)
evolve_next_generation()
(in
GeneticAlgorithmBase
)
end_of_score_type_enumeration
(in
rosetta
)
eval_intrares_energy()
(in
Fa_MbsolvEnergy
)
EX
(in
rosetta.core.pack.task._core_pack_task_
)
end_of_selector_list
(in
rosetta.protocols.generalized_kinematic_closure.selector._protocols_generalized_kinematic_closure_selector_
)
eval_intrares_energy()
(in
GaussianOverlapEnergy
)
ex()
(in
UnaryExpression
)
end_of_selector_list
(in
selector_type
)
eval_intrares_energy()
(in
GenBornEnergy
)
ex1()
(in
ResidueLevelTask
)
end_of_selector_list
(in
rosetta.protocols.generalized_kinematic_closure.selector
)
eval_intrares_energy()
(in
GoapEnergy
)
ex1()
(in
ResidueLevelTask_
)
end_output_writing()
(in
CloudPDBWriter
)
eval_intrares_energy()
(in
HybridVDW_Energy
)
ex1()
(in
ExtraRotamersGeneric
)
end_output_writing()
(in
OutputWriter
)
eval_intrares_energy()
(in
LK_BallEnergy
)
ex1()
(in
Xfrag
)
end_output_writing()
(in
PDBWriter
)
eval_intrares_energy()
(in
LK_PolarNonPolarEnergy
)
ex1_sample_level()
(in
ResidueLevelTask
)
end_output_writing()
(in
PoseMatchOutputWriter
)
eval_intrares_energy()
(in
LK_hack
)
ex1_sample_level()
(in
ResidueLevelTask_
)
end_output_writing()
(in
WriteKinemageOutputter
)
eval_intrares_energy()
(in
LongRangeTwoBodyEnergy
)
ex1_sample_level()
(in
ExtraRotamersGeneric
)
end_processing()
(in
MatchConsolidator
)
eval_intrares_energy()
(in
MMBondAngleEnergy
)
ex1aro()
(in
ResidueLevelTask
)
end_processing()
(in
MatchOutputter
)
eval_intrares_energy()
(in
MMBondLengthEnergy
)
ex1aro()
(in
ResidueLevelTask_
)
end_processing()
(in
MatchProcessor
)
eval_intrares_energy()
(in
MMLJEnergyInter
)
ex1aro()
(in
ExtraRotamersGeneric
)
end_receptor_partner_pair()
(in
PeptideDeriverBasicStreamOutputter
)
eval_intrares_energy()
(in
MMLJEnergyIntra
)
ex1aro_exposed()
(in
ResidueLevelTask
)
end_receptor_partner_pair()
(in
PeptideDeriverMarkdownStreamOutputter
)
eval_intrares_energy()
(in
MMTorsionEnergy
)
ex1aro_exposed()
(in
ResidueLevelTask_
)
end_receptor_partner_pair()
(in
PeptideDeriverOutputter
)
eval_intrares_energy()
(in
MembraneCenPairEnergy
)
ex1aro_exposed()
(in
ExtraRotamersGeneric
)
end_receptor_partner_pair()
(in
PeptideDeriverOutputterContainer
)
eval_intrares_energy()
(in
PairEnergy
)
ex1aro_exposed_sample_level()
(in
ResidueLevelTask
)
end_receptor_partner_pair()
(in
PeptideDeriverPoseOutputter
)
eval_intrares_energy()
(in
PeptideBondEnergy
)
ex1aro_exposed_sample_level()
(in
ResidueLevelTask_
)
end_res()
(in
DockingEnsemble
)
eval_intrares_energy()
(in
PoissonBoltzmannEnergy
)
ex1aro_exposed_sample_level()
(in
ExtraRotamersGeneric
)
end_res()
(in
LoopFromFileData
)
eval_intrares_energy()
(in
ProClosureEnergy
)
ex1aro_sample_level()
(in
ResidueLevelTask
)
end_res()
(in
KinematicMover
)
eval_intrares_energy()
(in
Rama2BOffsetEnergy
)
ex1aro_sample_level()
(in
ResidueLevelTask_
)
end_res()
(in
DatabaseThread
)
eval_intrares_energy()
(in
RamachandranEnergy2B
)
ex1aro_sample_level()
(in
ExtraRotamersGeneric
)
end_structure()
(in
PeptideDeriverBasicStreamOutputter
)
eval_intrares_energy()
(in
ShortRangeTwoBodyEnergy
)
ex2()
(in
ResidueLevelTask
)
end_structure()
(in
PeptideDeriverMarkdownStreamOutputter
)
eval_intrares_energy()
(in
SmoothCenPairEnergy
)
ex2()
(in
ResidueLevelTask_
)
end_structure()
(in
PeptideDeriverOutputter
)
eval_intrares_energy()
(in
SuckerEnergy
)
ex2()
(in
ExtraRotamersGeneric
)
end_structure()
(in
PeptideDeriverOutputterContainer
)
eval_intrares_energy()
(in
TwoBodyEnergy
)
ex2()
(in
Xfrag
)
end_structure()
(in
PeptideDeriverPoseOutputter
)
eval_intrares_energy()
(in
WaterAdductHBondEnergy
)
ex2_sample_level()
(in
ResidueLevelTask
)
end_time()
(in
Job
)
eval_intrares_energy()
(in
DFIRE_Energy
)
ex2_sample_level()
(in
ResidueLevelTask_
)
end_timing()
(in
Job
)
eval_intrares_energy()
(in
OrbitalsScore
)
ex2_sample_level()
(in
ExtraRotamersGeneric
)
end_weight()
(in
RampingMover
)
eval_intrares_energy()
(in
RNA_FullAtomStackingEnergy
)
ex2aro()
(in
ResidueLevelTask
)
endpoints()
(in
IntervalSet_T_double_T
)
eval_intrares_energy()
(in
RNA_JR_SuiteEnergy
)
ex2aro()
(in
ResidueLevelTask_
)
endswith()
(in
rosetta.utility._utility_
)
eval_intrares_energy()
(in
RNA_LJ_BaseEnergy
)
ex2aro()
(in
ExtraRotamersGeneric
)
EndToEndPivots
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
eval_intrares_energy()
(in
RNA_Mg_Energy
)
ex2aro_exposed()
(in
ResidueLevelTask
)
EndToEndPivotsAP
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
eval_intrares_energy()
(in
RNA_PairwiseLowResolutionEnergy
)
ex2aro_exposed()
(in
ResidueLevelTask_
)
EndToEndPivotsCAP
(in
rosetta.protocols.kinematic_closure.pivot_pickers._protocols_kinematic_closure_pivot_pickers_
)
eval_intrares_energy()
(in
RNA_SuiteEnergy
)
ex2aro_exposed()
(in
ExtraRotamersGeneric
)
Energies
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy()
(in
RNA_TorsionEnergy
)
ex2aro_exposed_sample_level()
(in
ResidueLevelTask
)
energies()
(in
SilentStruct
)
eval_intrares_energy()
(in
RNA_TorsionPotential
)
ex2aro_exposed_sample_level()
(in
ResidueLevelTask_
)
energies()
(in
Pose
)
eval_intrares_energy()
(in
RNA_VDW_Energy
)
ex2aro_exposed_sample_level()
(in
ExtraRotamersGeneric
)
ENERGIES_COPY
(in
rosetta.basic
)
eval_intrares_energy()
(in
StackElecEnergy
)
ex2aro_sample_level()
(in
ResidueLevelTask
)
ENERGIES_COPY
(in
rosetta.basic._basic_
)
eval_intrares_energy()
(in
RNA_DataBackboneEnergy
)
ex2aro_sample_level()
(in
ResidueLevelTask_
)
ENERGIES_COPY
(in
ProfTag
)
eval_intrares_energy()
(in
symEnergy
)
ex2aro_sample_level()
(in
ExtraRotamersGeneric
)
energies_from_pose()
(in
SilentStruct
)
eval_intrares_energy()
(in
IgnoreSubsetConstraintSet
)
ex3()
(in
ResidueLevelTask
)
energies_into_pose()
(in
SilentStruct
)
eval_intrares_energy()
(in
MaxSeqSepConstraintSet
)
ex3()
(in
ResidueLevelTask_
)
energies_not_yet_computed()
(in
EnergyEdge
)
eval_intrares_energy()
(in
InterchainPairEnergy
)
ex3()
(in
ExtraRotamersGeneric
)
energies_updated()
(in
Energies
)
eval_intrares_energy_ext()
(in
CarbonHBondEnergy
)
ex3()
(in
Xfrag
)
EnergiesAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
ConstraintsEnergy
)
ex3_sample_level()
(in
ResidueLevelTask
)
EnergiesCAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
FullatomCustomPairDistanceEnergy
)
ex3_sample_level()
(in
ResidueLevelTask_
)
EnergiesData
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
eval_intrares_energy_ext()
(in
CentroidDisulfideEnergy
)
ex3_sample_level()
(in
ExtraRotamersGeneric
)
EnergiesDataAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
eval_intrares_energy_ext()
(in
DisulfideMatchingEnergy
)
ex4()
(in
ResidueLevelTask
)
EnergiesDataCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
eval_intrares_energy_ext()
(in
FullatomDisulfideEnergy
)
ex4()
(in
ResidueLevelTask_
)
energy()
(in
CentroidRotamerSampleData
)
eval_intrares_energy_ext()
(in
DNATorsionEnergy
)
ex4()
(in
ExtraRotamersGeneric
)
energy()
(in
HBond
)
eval_intrares_energy_ext()
(in
FA_ElecEnergy
)
ex4()
(in
Xfrag
)
energy_computed()
(in
DenseNeighborConstIterator
)
eval_intrares_energy_ext()
(in
FA_ElecEnergyAroAll
)
ex4_sample_level()
(in
ResidueLevelTask
)
energy_computed()
(in
DenseNeighborIterator
)
eval_intrares_energy_ext()
(in
FA_ElecEnergyAroAro
)
ex4_sample_level()
(in
ResidueLevelTask_
)
energy_computed()
(in
OneToAllNeighborConstIterator
)
eval_intrares_energy_ext()
(in
FA_GrpElecEnergy
)
ex4_sample_level()
(in
ExtraRotamersGeneric
)
energy_computed()
(in
OneToAllNeighborIterator
)
eval_intrares_energy_ext()
(in
RNA_FA_ElecEnergy
)
EX_CUTOFF
(in
rosetta.core.pack.task._core_pack_task_
)
energy_computed()
(in
PeptideBondedNeighborConstIterator
)
eval_intrares_energy_ext()
(in
ElecDensAllAtomCenEnergy
)
EX_CUTOFFAP
(in
rosetta.core.pack.task._core_pack_task_
)
energy_computed()
(in
PeptideBondedNeighborIterator
)
eval_intrares_energy_ext()
(in
ElecDensCenEnergy
)
EX_CUTOFFCAP
(in
rosetta.core.pack.task._core_pack_task_
)
energy_computed()
(in
ResidueNeighborConstIterator
)
eval_intrares_energy_ext()
(in
ElecDensEnergy
)
EX_FOUR_HALF_STEP_STDDEVS
(in
rosetta
)
energy_computed()
(in
ResidueNeighborIterator
)
eval_intrares_energy_ext()
(in
FastDensEnergy
)
EX_FOUR_HALF_STEP_STDDEVS
(in
rosetta.core.pack.task
)
energy_computed()
(in
ConstraintEdge
)
eval_intrares_energy_ext()
(in
PattersonCorrEnergy
)
EX_FOUR_HALF_STEP_STDDEVS
(in
rosetta.core.pack.task._core_pack_task_
)
energy_computed()
(in
CstResNeighbConstIterator
)
eval_intrares_energy_ext()
(in
ElecDensAtomwiseEnergy
)
EX_FOUR_HALF_STEP_STDDEVS
(in
ExtraRotSample
)
energy_computed()
(in
CstResNeighbIterator
)
eval_intrares_energy_ext()
(in
AnalyticEtableEnergy
)
EX_ONE_HALF_STEP_STDDEV
(in
rosetta
)
energy_computed()
(in
CentroidDisulfideEnergyContainer
)
eval_intrares_energy_ext()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
EX_ONE_HALF_STEP_STDDEV
(in
rosetta.core.pack.task
)
energy_computed()
(in
CentroidDisulfideNeighborConstIterator
)
eval_intrares_energy_ext()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
EX_ONE_HALF_STEP_STDDEV
(in
rosetta.core.pack.task._core_pack_task_
)
energy_computed()
(in
CentroidDisulfideNeighborIterator
)
eval_intrares_energy_ext()
(in
TableLookupEtableEnergy
)
EX_ONE_HALF_STEP_STDDEV
(in
ExtraRotSample
)
energy_computed()
(in
DisulfResNeighbConstIterator
)
eval_intrares_energy_ext()
(in
ContextDependentGeometricSolEnergy
)
EX_ONE_STDDEV
(in
rosetta
)
energy_computed()
(in
DisulfResNeighbIterator
)
eval_intrares_energy_ext()
(in
ContextIndependentGeometricSolEnergy
)
EX_ONE_STDDEV
(in
rosetta.core.pack.task
)
energy_computed()
(in
DisulfideMatchingEnergyContainer
)
eval_intrares_energy_ext()
(in
OccludedHbondSolEnergy
)
EX_ONE_STDDEV
(in
rosetta.core.pack.task._core_pack_task_
)
energy_computed()
(in
DisulfideMatchingNeighborConstIterator
)
eval_intrares_energy_ext()
(in
HackAroEnergy
)
EX_ONE_STDDEV
(in
ExtraRotSample
)
energy_computed()
(in
DisulfideMatchingNeighborIterator
)
eval_intrares_energy_ext()
(in
HBondEnergy
)
EX_SIX_QUARTER_STEP_STDDEVS
(in
rosetta
)
energy_computed()
(in
FullatomDisulfideEnergyContainer
)
eval_intrares_energy_ext()
(in
DDPscore
)
EX_SIX_QUARTER_STEP_STDDEVS
(in
rosetta.core.pack.task
)
energy_cut()
(in
SilentFilePoseInputStream
)
eval_intrares_energy_ext()
(in
FaMPSolvEnergy
)
EX_SIX_QUARTER_STEP_STDDEVS
(in
rosetta.core.pack.task._core_pack_task_
)
energy_drop()
(in
TrialCounter
)
eval_intrares_energy_ext()
(in
MPPairEnergy
)
EX_SIX_QUARTER_STEP_STDDEVS
(in
ExtraRotSample
)
ENERGY_ENVPAIR_POTENTIAL
(in
rosetta.basic
)
eval_intrares_energy_ext()
(in
CartesianBondedEnergy
)
EX_THREE_THIRD_STEP_STDDEVS
(in
rosetta
)
ENERGY_ENVPAIR_POTENTIAL
(in
rosetta.basic._basic_
)
eval_intrares_energy_ext()
(in
CenHBEnergy
)
EX_THREE_THIRD_STEP_STDDEVS
(in
rosetta.core.pack.task
)
ENERGY_ENVPAIR_POTENTIAL
(in
ProfTag
)
eval_intrares_energy_ext()
(in
CenPairEnergy
)
EX_THREE_THIRD_STEP_STDDEVS
(in
rosetta.core.pack.task._core_pack_task_
)
energy_from_pose()
(in
rosetta.core.pose._core_pose_
)
eval_intrares_energy_ext()
(in
CenRotPairEnergy
)
EX_THREE_THIRD_STEP_STDDEVS
(in
ExtraRotSample
)
energy_graph()
(in
Energies
)
eval_intrares_energy_ext()
(in
ContextDependentLRTwoBodyEnergy
)
EX_TWO_FULL_STEP_STDDEVS
(in
rosetta
)
ENERGY_GRAPH_COPY
(in
rosetta.basic
)
eval_intrares_energy_ext()
(in
ContextDependentTwoBodyEnergy
)
EX_TWO_FULL_STEP_STDDEVS
(in
rosetta.core.pack.task
)
ENERGY_GRAPH_COPY
(in
rosetta.basic._basic_
)
eval_intrares_energy_ext()
(in
ContextIndependentLRTwoBodyEnergy
)
EX_TWO_FULL_STEP_STDDEVS
(in
rosetta.core.pack.task._core_pack_task_
)
ENERGY_GRAPH_COPY
(in
ProfTag
)
eval_intrares_energy_ext()
(in
ContextIndependentTwoBodyEnergy
)
EX_TWO_FULL_STEP_STDDEVS
(in
ExtraRotSample
)
energy_map()
(in
EnergiesData
)
eval_intrares_energy_ext()
(in
CustomAtomPairEnergy
)
EX_TWO_HALF_STEP_STDDEVS
(in
rosetta
)
energy_method()
(in
ScoringManager
)
eval_intrares_energy_ext()
(in
DNA_BaseEnergy
)
EX_TWO_HALF_STEP_STDDEVS
(in
rosetta.core.pack.task
)
energy_method_options()
(in
ScoreFunction
)
eval_intrares_energy_ext()
(in
Fa_MbsolvEnergy
)
EX_TWO_HALF_STEP_STDDEVS
(in
rosetta.core.pack.task._core_pack_task_
)
energy_names()
(in
EnergyNames
)
eval_intrares_energy_ext()
(in
GaussianOverlapEnergy
)
EX_TWO_HALF_STEP_STDDEVS
(in
ExtraRotSample
)
energy_names()
(in
SilentStruct
)
eval_intrares_energy_ext()
(in
GenBornEnergy
)
ExactOccludedHbondSolEnergy
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
energy_reduction_factor()
(in
RotamerBoltzmannWeight
)
eval_intrares_energy_ext()
(in
GoapEnergy
)
ExactOccludedHbondSolEnergyAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
energy_terms()
(in
OptEData
)
eval_intrares_energy_ext()
(in
HybridVDW_Energy
)
ExactOccludedHbondSolEnergyCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
energy_type()
(in
PyMolMover
)
eval_intrares_energy_ext()
(in
LK_BallEnergy
)
ExactOccludedHbondSolEnergyCreator
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
EnergyCutRotamerTrialsMinMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
eval_intrares_energy_ext()
(in
LK_PolarNonPolarEnergy
)
ExactOccludedHbondSolEnergyCreatorAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
EnergyCutRotamerTrialsMinMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
eval_intrares_energy_ext()
(in
LK_hack
)
ExactOccludedHbondSolEnergyCreatorCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
EnergyCutRotamerTrialsMinMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
eval_intrares_energy_ext()
(in
LongRangeTwoBodyEnergy
)
ExactResidueMatcher
(in
rosetta.core.conformation._core_conformation_
)
EnergyCutRotamerTrialsMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
eval_intrares_energy_ext()
(in
MMBondAngleEnergy
)
ExactResidueMatcherAP
(in
rosetta.core.conformation._core_conformation_
)
EnergyCutRotamerTrialsMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
eval_intrares_energy_ext()
(in
MMBondLengthEnergy
)
ExactResidueMatcherCAP
(in
rosetta.core.conformation._core_conformation_
)
EnergyCutRotamerTrialsMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
eval_intrares_energy_ext()
(in
MMLJEnergyInter
)
EXAP
(in
rosetta.core.pack.task._core_pack_task_
)
EnergyDependentCalculator
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
eval_intrares_energy_ext()
(in
MMLJEnergyIntra
)
EXCAP
(in
rosetta.core.pack.task._core_pack_task_
)
EnergyDependentCalculatorAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
eval_intrares_energy_ext()
(in
MMTorsionEnergy
)
exchange_grid_dim()
(in
FixedTemperatureController
)
EnergyDependentCalculatorCAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
eval_intrares_energy_ext()
(in
MembraneCenPairEnergy
)
exchange_grid_dim()
(in
HamiltonianExchange
)
EnergyEdge
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
PairEnergy
)
exchange_grid_dim()
(in
ParallelTempering
)
EnergyEdgeAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
PeptideBondEnergy
)
exchange_grid_dim()
(in
SimulatedTempering
)
EnergyEdgeCAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
PoissonBoltzmannEnergy
)
exchange_grid_dim()
(in
TemperatureController
)
EnergyEval
(in
rosetta.core.fragment.picking_old.vall.eval._core_fragment_picking_old_vall_eval_
)
eval_intrares_energy_ext()
(in
ProClosureEnergy
)
exchange_grid_dim()
(in
TemperingBase
)
EnergyEvalAP
(in
rosetta.core.fragment.picking_old.vall.eval._core_fragment_picking_old_vall_eval_
)
eval_intrares_energy_ext()
(in
Rama2BOffsetEnergy
)
exclude_aatypes_for_selection()
(in
SelectResiduesByLayer
)
EnergyEvalCAP
(in
rosetta.core.fragment.picking_old.vall.eval._core_fragment_picking_old_vall_eval_
)
eval_intrares_energy_ext()
(in
RamachandranEnergy2B
)
exclude_DNA_DNA()
(in
HBondOptions
)
EnergyEvent
(in
rosetta.core.pose.signals._core_pose_signals_
)
eval_intrares_energy_ext()
(in
ShortRangeTwoBodyEnergy
)
exclude_DNA_DNA()
(in
EnergyMethodOptions
)
energyEvent()
(in
PyMolObserver
)
eval_intrares_energy_ext()
(in
SmoothCenPairEnergy
)
exclude_intra_res_protein()
(in
HBondOptions
)
EnergyEventAP
(in
rosetta.core.pose.signals._core_pose_signals_
)
eval_intrares_energy_ext()
(in
SuckerEnergy
)
exclude_intra_res_protein()
(in
EnergyMethodOptions
)
EnergyEventCAP
(in
rosetta.core.pose.signals._core_pose_signals_
)
eval_intrares_energy_ext()
(in
TwoBodyEnergy
)
exclude_intra_res_RNA()
(in
HBondOptions
)
EnergyGraph
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
WaterAdductHBondEnergy
)
exclude_monomer_fa_elec()
(in
EnergyMethodOptions
)
EnergyGraphAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
DFIRE_Energy
)
exclude_protein_protein_fa_elec()
(in
EnergyMethodOptions
)
EnergyGraphCAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intrares_energy_ext()
(in
OrbitalsScore
)
exclude_residues()
(in
FragmentBiasAssigner
)
EnergyMethod
(in
rosetta
)
eval_intrares_energy_ext()
(in
RNA_FullAtomStackingEnergy
)
exclude_residues_vector_is_current()
(in
PCS_Energy_parameters_manager
)
EnergyMethod
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_JR_SuiteEnergy
)
exclude_residues_vector_is_current()
(in
PCS_Energy_parameters_manager_Ts1
)
EnergyMethodAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_LJ_BaseEnergy
)
exclude_residues_vector_is_current()
(in
PCS_Energy_parameters_manager_Ts2
)
EnergyMethodCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_Mg_Energy
)
exclude_residues_vector_is_current()
(in
PCS_Energy_parameters_manager_Ts3
)
EnergyMethodCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_PairwiseLowResolutionEnergy
)
exclude_residues_vector_is_current()
(in
PCS_Energy_parameters_manager_Ts4
)
EnergyMethodCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_SuiteEnergy
)
exclude_self_hbonds()
(in
HBondOptions
)
EnergyMethodCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_TorsionEnergy
)
exclude_variants()
(in
ResidueSelector
)
EnergyMethodOptions
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_VDW_Energy
)
ExcludedResPredicate
(in
rosetta.core.scoring._core_scoring_
)
EnergyMethodOptionsAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
StackElecEnergy
)
ExcludedResPredicateAP
(in
rosetta.core.scoring._core_scoring_
)
EnergyMethodOptionsCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
RNA_DataBackboneEnergy
)
ExcludedResPredicateCAP
(in
rosetta.core.scoring._core_scoring_
)
EnergyMethods
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
symEnergy
)
EXCLUSIVE
(in
rosetta.protocols.environment.claims
)
EnergyMethodType
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_intrares_energy_ext()
(in
InterchainPairEnergy
)
EXCLUSIVE
(in
ClaimStrength
)
EnergyNames
(in
rosetta.core.io.silent._core_io_silent_
)
eval_intraresidue_dof_derivative()
(in
CarbonHBondEnergy
)
EXCLUSIVE
(in
PrioSubtype
)
energynames
(in
SharedSilentDataType
)
eval_intraresidue_dof_derivative()
(in
ConstraintsEnergy
)
EXCLUSIVE
(in
ControlStrength
)
energynames
(in
rosetta.core.io.silent._core_io_silent_
)
eval_intraresidue_dof_derivative()
(in
FullatomCustomPairDistanceEnergy
)
EXCLUSIVE
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
energynames
(in
rosetta.core.io.silent
)
eval_intraresidue_dof_derivative()
(in
CentroidDisulfideEnergy
)
EXCLUSIVE
(in
ClaimRight
)
EnergyNamesAP
(in
rosetta.core.io.silent._core_io_silent_
)
eval_intraresidue_dof_derivative()
(in
DisulfideMatchingEnergy
)
EXCLUSIVE
(in
DofClaim
)
EnergyNamesCAP
(in
rosetta.core.io.silent._core_io_silent_
)
eval_intraresidue_dof_derivative()
(in
FullatomDisulfideEnergy
)
exclusive()
(in
DofClaim
)
EnergyNode
(in
rosetta.core.scoring._core_scoring_
)
eval_intraresidue_dof_derivative()
(in
DNATorsionEnergy
)
excn
(in
rosetta.utility
)
EnergyNodeAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intraresidue_dof_derivative()
(in
FA_ElecEnergy
)
EXCN_Archive
(in
rosetta.protocols.jd2.archive._protocols_jd2_archive_
)
EnergyNodeCAP
(in
rosetta.core.scoring._core_scoring_
)
eval_intraresidue_dof_derivative()
(in
FA_ElecEnergyAroAll
)
EXCN_ArchiveAP
(in
rosetta.protocols.jd2.archive._protocols_jd2_archive_
)
EnergyPerResidueFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
eval_intraresidue_dof_derivative()
(in
FA_ElecEnergyAroAro
)
EXCN_ArchiveCAP
(in
rosetta.protocols.jd2.archive._protocols_jd2_archive_
)
EnergyPerResidueFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
eval_intraresidue_dof_derivative()
(in
FA_GrpElecEnergy
)
EXCN_AtomNotFound
(in
rosetta.core.id._core_id_
)
EnergyPerResidueFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
eval_intraresidue_dof_derivative()
(in
RNA_FA_ElecEnergy
)
EXCN_AtomNotFoundAP
(in
rosetta.core.id._core_id_
)
EnergyPerResidueFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
eval_intraresidue_dof_derivative()
(in
ElecDensAllAtomCenEnergy
)
EXCN_AtomNotFoundCAP
(in
rosetta.core.id._core_id_
)
EnergyPerResidueFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
eval_intraresidue_dof_derivative()
(in
ElecDensCenEnergy
)
EXCN_BadInput
(in
rosetta.utility.excn._utility_excn_
)
EnergyPerResidueFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
eval_intraresidue_dof_derivative()
(in
ElecDensEnergy
)
EXCN_BadInputAP
(in
rosetta.utility.excn._utility_excn_
)
EnergyReporterAP
(in
rosetta.protocols.pose_reporters._protocols_pose_reporters_'
)
eval_intraresidue_dof_derivative()
(in
FastDensEnergy
)
EXCN_BadInputCAP
(in
rosetta.utility.excn._utility_excn_
)
EnergyReporterCAP
(in
rosetta.protocols.pose_reporters._protocols_pose_reporters_'
)
eval_intraresidue_dof_derivative()
(in
PattersonCorrEnergy
)
EXCN_Base
(in
rosetta.utility.excn._utility_excn_
)
enforce_minimum_length()
(in
Interface
)
eval_intraresidue_dof_derivative()
(in
ElecDensAtomwiseEnergy
)
EXCN_BaseAP
(in
rosetta.utility.excn._utility_excn_
)
ENGINEERED
(in
CompoundToken
)
eval_intraresidue_dof_derivative()
(in
AnalyticEtableEnergy
)
EXCN_BaseCAP
(in
rosetta.utility.excn._utility_excn_
)
ENGINEERED
(in
HeaderInformation
)
eval_intraresidue_dof_derivative()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
EXCN_bbdb_Merge_Failed
(in
rosetta.protocols.loophash._protocols_loophash_
)
Enhanced_Chothia_Scheme
(in
rosetta.protocols.antibody
)
eval_intraresidue_dof_derivative()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
EXCN_bbdb_Merge_FailedAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
Enhanced_Chothia_Scheme
(in
AntibodyNumberingSchemeEnum
)
eval_intraresidue_dof_derivative()
(in
TableLookupEtableEnergy
)
EXCN_bbdb_Merge_FailedCAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
Enhanced_Chothia_Scheme
(in
rosetta.protocols.antibody._protocols_antibody_
)
eval_intraresidue_dof_derivative()
(in
ContextDependentGeometricSolEnergy
)
EXCN_Converged
(in
rosetta.protocols.moves._protocols_moves_
)
enlarge_h_lj_wdepth()
(in
rosetta.core.chemical._core_chemical_
)
eval_intraresidue_dof_derivative()
(in
ContextIndependentGeometricSolEnergy
)
EXCN_Converged
(in
rosetta.protocols.moves.mc_convergence_checks._protocols_moves_mc_convergence_checks_
)
enlargen_to_capture_volume_within_radius_of_backbone()
(in
ActiveSiteGrid
)
eval_intraresidue_dof_derivative()
(in
OccludedHbondSolEnergy
)
EXCN_ConvergedAP
(in
rosetta.protocols.moves._protocols_moves_
)
enlargen_to_capture_volume_within_radius_of_residue()
(in
ActiveSiteGrid
)
eval_intraresidue_dof_derivative()
(in
HackAroEnergy
)
EXCN_ConvergedAP
(in
rosetta.protocols.moves.mc_convergence_checks._protocols_moves_mc_convergence_checks_
)
enlargen_to_capture_volume_within_radius_of_sidechain()
(in
ActiveSiteGrid
)
eval_intraresidue_dof_derivative()
(in
HBondEnergy
)
EXCN_ConvergedCAP
(in
rosetta.protocols.moves._protocols_moves_
)
enough_connections()
(in
RegionalConnections
)
eval_intraresidue_dof_derivative()
(in
DDPscore
)
EXCN_ConvergedCAP
(in
rosetta.protocols.moves.mc_convergence_checks._protocols_moves_mc_convergence_checks_
)
enqueue()
(in
CyclicMover
)
eval_intraresidue_dof_derivative()
(in
FaMPSolvEnergy
)
EXCN_DB_IO_Failed
(in
rosetta.protocols.loophash._protocols_loophash_
)
EnsembleConstraints
(in
rosetta.protocols.cluster._protocols_cluster_
)
eval_intraresidue_dof_derivative()
(in
MPPairEnergy
)
EXCN_DB_IO_FailedAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
EnsembleConstraints_Simple
(in
rosetta.protocols.cluster._protocols_cluster_
)
eval_intraresidue_dof_derivative()
(in
CartesianBondedEnergy
)
EXCN_DB_IO_FailedCAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
EnsembleConstraints_SimpleAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
eval_intraresidue_dof_derivative()
(in
CenHBEnergy
)
EXCN_Env_Exception
(in
rosetta.core.environment._core_environment_
)
EnsembleConstraints_SimpleCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
eval_intraresidue_dof_derivative()
(in
CenPairEnergy
)
EXCN_Env_ExceptionAP
(in
rosetta.core.environment._core_environment_
)
EnsembleConstraintsAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
eval_intraresidue_dof_derivative()
(in
CenRotPairEnergy
)
EXCN_Env_ExceptionCAP
(in
rosetta.core.environment._core_environment_
)
EnsembleConstraintsCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
eval_intraresidue_dof_derivative()
(in
ContextDependentLRTwoBodyEnergy
)
EXCN_Env_Passport
(in
rosetta.protocols.environment._protocols_environment_
)
EnsembleEnergy
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
eval_intraresidue_dof_derivative()
(in
ContextDependentTwoBodyEnergy
)
EXCN_Env_PassportAP
(in
rosetta.protocols.environment._protocols_environment_
)
EnsembleEnergyAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
eval_intraresidue_dof_derivative()
(in
ContextIndependentLRTwoBodyEnergy
)
EXCN_Env_PassportCAP
(in
rosetta.protocols.environment._protocols_environment_
)
EnsembleEnergyCAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
eval_intraresidue_dof_derivative()
(in
ContextIndependentTwoBodyEnergy
)
EXCN_Env_Security_Exception
(in
rosetta.protocols.environment._protocols_environment_
)
EnsembleEnergyCreator
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
eval_intraresidue_dof_derivative()
(in
CustomAtomPairEnergy
)
EXCN_Env_Security_ExceptionAP
(in
rosetta.protocols.environment._protocols_environment_
)
EnsembleEnergyCreatorAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
eval_intraresidue_dof_derivative()
(in
DNA_BaseEnergy
)
EXCN_Env_Security_ExceptionCAP
(in
rosetta.protocols.environment._protocols_environment_
)
EnsembleEnergyCreatorCAP
(in
rosetta.protocols.scoring.methods._protocols_scoring_methods_
)
eval_intraresidue_dof_derivative()
(in
Fa_MbsolvEnergy
)
EXCN_Exception
(in
rosetta.utility.excn._utility_excn_
)
ensure_directory_for_out_silent_file_exists()
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
eval_intraresidue_dof_derivative()
(in
GaussianOverlapEnergy
)
EXCN_ExceptionAP
(in
rosetta.utility.excn._utility_excn_
)
ensure_lrenergy_container_is_up_to_date()
(in
FullatomDisulfideEnergy
)
eval_intraresidue_dof_derivative()
(in
GenBornEnergy
)
EXCN_ExceptionCAP
(in
rosetta.utility.excn._utility_excn_
)
ensure_phosphate_nomenclature_matches_mini()
(in
rosetta.protocols.farna._protocols_farna_
)
eval_intraresidue_dof_derivative()
(in
GoapEnergy
)
EXCN_FileNotFound
(in
rosetta.utility.excn._utility_excn_
)
ensure_proper_his_tautomers()
(in
MatchGrafter
)
eval_intraresidue_dof_derivative()
(in
HybridVDW_Energy
)
EXCN_FileNotFoundAP
(in
rosetta.utility.excn._utility_excn_
)
ensure_size()
(in
Particle
)
eval_intraresidue_dof_derivative()
(in
LK_BallEnergy
)
EXCN_FileNotFoundCAP
(in
rosetta.utility.excn._utility_excn_
)
ensure_valid_full_seq_num()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
eval_intraresidue_dof_derivative()
(in
LK_PolarNonPolarEnergy
)
EXCN_FTSketchGraph
(in
rosetta.core.environment._core_environment_
)
ENTER
(in
rosetta.core.scoring.packstat
)
eval_intraresidue_dof_derivative()
(in
LK_hack
)
EXCN_FTSketchGraphAP
(in
rosetta.core.environment._core_environment_
)
ENTER
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
eval_intraresidue_dof_derivative()
(in
LongRangeTwoBodyEnergy
)
EXCN_FTSketchGraphCAP
(in
rosetta.core.environment._core_environment_
)
ENTER
(in
EventType
)
eval_intraresidue_dof_derivative()
(in
MMBondAngleEnergy
)
EXCN_Heat_Converged
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
entities_checkpoint_filename()
(in
GeneticAlgorithm
)
eval_intraresidue_dof_derivative()
(in
MMBondLengthEnergy
)
EXCN_Heat_ConvergedAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
entities_checkpoint_filename()
(in
GeneticAlgorithmBase
)
eval_intraresidue_dof_derivative()
(in
MMLJEnergyInter
)
EXCN_Heat_ConvergedCAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
Entity
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
MMLJEnergyIntra
)
EXCN_Illegal_Arguments
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
entity_cache()
(in
GeneticAlgorithm
)
eval_intraresidue_dof_derivative()
(in
MMTorsionEnergy
)
EXCN_Illegal_ArgumentsAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
entity_cache()
(in
GeneticAlgorithmBase
)
eval_intraresidue_dof_derivative()
(in
MembraneCenPairEnergy
)
EXCN_Illegal_ArgumentsCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
entity_for_residue()
(in
EntityCorrespondence
)
eval_intraresidue_dof_derivative()
(in
PairEnergy
)
EXCN_Invalid_Hashmap
(in
rosetta.protocols.loophash._protocols_loophash_
)
entity_length()
(in
DiscreteRandomizer
)
eval_intraresidue_dof_derivative()
(in
PeptideBondEnergy
)
EXCN_Invalid_HashmapAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
entity_length()
(in
EntityRandomizer
)
eval_intraresidue_dof_derivative()
(in
PoissonBoltzmannEnergy
)
EXCN_Invalid_HashmapCAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
entity_length()
(in
Mutate1Randomizer
)
eval_intraresidue_dof_derivative()
(in
ProClosureEnergy
)
EXCN_InvalidFoldTree
(in
rosetta.core.kinematics._core_kinematics_
)
entity_length()
(in
PositionSpecificRandomizer
)
eval_intraresidue_dof_derivative()
(in
Rama2BOffsetEnergy
)
EXCN_InvalidFoldTreeAP
(in
rosetta.core.kinematics._core_kinematics_
)
entity_resfile()
(in
DaemonSet
)
eval_intraresidue_dof_derivative()
(in
RamachandranEnergy2B
)
EXCN_InvalidFoldTreeCAP
(in
rosetta.core.kinematics._core_kinematics_
)
entity_task()
(in
DaemonSet
)
eval_intraresidue_dof_derivative()
(in
ShortRangeTwoBodyEnergy
)
EXCN_IO
(in
rosetta.utility.excn._utility_excn_
)
entity_template()
(in
DiscreteRandomizer
)
eval_intraresidue_dof_derivative()
(in
SmoothCenPairEnergy
)
EXCN_IOAP
(in
rosetta.utility.excn._utility_excn_
)
entity_template()
(in
EntityRandomizer
)
eval_intraresidue_dof_derivative()
(in
SuckerEnergy
)
EXCN_IOCAP
(in
rosetta.utility.excn._utility_excn_
)
entity_template()
(in
GeneticAlgorithm
)
eval_intraresidue_dof_derivative()
(in
TwoBodyEnergy
)
EXCN_JD2Failure
(in
rosetta.utility.excn._utility_excn_
)
entity_template()
(in
GeneticAlgorithmBase
)
eval_intraresidue_dof_derivative()
(in
WaterAdductHBondEnergy
)
EXCN_JD2FailureAP
(in
rosetta.utility.excn._utility_excn_
)
entity_template()
(in
Mutate1Randomizer
)
eval_intraresidue_dof_derivative()
(in
DFIRE_Energy
)
EXCN_JD2FailureCAP
(in
rosetta.utility.excn._utility_excn_
)
entity_template()
(in
PositionSpecificRandomizer
)
eval_intraresidue_dof_derivative()
(in
OrbitalsScore
)
EXCN_KeyError
(in
rosetta.utility.excn._utility_excn_
)
EntityAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
RNA_FullAtomStackingEnergy
)
EXCN_KeyErrorAP
(in
rosetta.utility.excn._utility_excn_
)
EntityCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
RNA_JR_SuiteEnergy
)
EXCN_KeyErrorCAP
(in
rosetta.utility.excn._utility_excn_
)
EntityCorrespondence
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_intraresidue_dof_derivative()
(in
RNA_LJ_BaseEnergy
)
EXCN_Loop_not_closed
(in
rosetta.protocols.loops._protocols_loops_
)
EntityCorrespondenceAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_intraresidue_dof_derivative()
(in
RNA_Mg_Energy
)
EXCN_Loop_not_closedAP
(in
rosetta.protocols.loops._protocols_loops_
)
EntityCorrespondenceCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_intraresidue_dof_derivative()
(in
RNA_PairwiseLowResolutionEnergy
)
EXCN_Loop_not_closedCAP
(in
rosetta.protocols.loops._protocols_loops_
)
EntityElement
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
RNA_SuiteEnergy
)
EXCN_Membrane
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
RNA_TorsionEnergy
)
EXCN_Membrane_Bounds
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
RNA_VDW_Energy
)
EXCN_Membrane_BoundsAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementCreator
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
StackElecEnergy
)
EXCN_Membrane_BoundsCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementCreatorAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
RNA_DataBackboneEnergy
)
EXCN_MembraneAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementCreatorCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
symEnergy
)
EXCN_MembraneCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementFactory
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_intraresidue_dof_derivative()
(in
InterchainPairEnergy
)
EXCN_MembraneFoldTree
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementFactoryAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_lk_ball_fraction_deriv()
(in
LK_BallEnergy
)
EXCN_MembraneFoldTreeAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementFactoryCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_lk_fraction()
(in
LK_BallEnergy
)
EXCN_MembraneFoldTreeCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityElementsEqual
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_long_range_twobody_energies()
(in
DockingScoreFunction
)
EXCN_Msg_Exception
(in
rosetta.utility.excn._utility_excn_
)
EntityElementsEqualAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_long_range_twobody_energies()
(in
MinScoreScoreFunction
)
EXCN_Msg_ExceptionAP
(in
rosetta.utility.excn._utility_excn_
)
EntityElementsEqualCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_long_range_twobody_energies()
(in
ScoreFunction
)
EXCN_Msg_ExceptionCAP
(in
rosetta.utility.excn._utility_excn_
)
EntityFunc
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_long_range_twobody_energies()
(in
SymmetricScoreFunction
)
EXCN_No_Extra_Data_To_Write
(in
rosetta.protocols.loophash._protocols_loophash_
)
EntityFuncAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_long_range_twobody_energies()
(in
OtherContextScoreFunction
)
EXCN_No_Extra_Data_To_WriteAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
EntityFuncCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_longRange_2b_residue()
(in
ScoringSecMatchRPE
)
EXCN_No_Extra_Data_To_WriteCAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
EntityFuncExpressionCreator
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_lowest_score_pose()
(in
MonteCarlo
)
EXCN_NonMembrane
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityFuncExpressionCreatorAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_multibody_atom_derivative()
(in
ConstraintSet
)
EXCN_NonMembraneAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityFuncExpressionCreatorCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_multibody_atom_derivative()
(in
IgnoreSubsetConstraintSet
)
EXCN_NonMembraneCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EntityRandomizer
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_multibody_atom_derivative()
(in
MaxSeqSepConstraintSet
)
EXCN_NullPointer
(in
rosetta.utility.excn._utility_excn_
)
EntityRandomizerAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_non_residue_pair_energy()
(in
ConstraintSet
)
EXCN_NullPointerAP
(in
rosetta.utility.excn._utility_excn_
)
EntityRandomizerCAP
(in
rosetta.protocols.genetic_algorithm._protocols_genetic_algorithm_
)
eval_non_residue_pair_energy()
(in
IgnoreSubsetConstraintSet
)
EXCN_NullPointerCAP
(in
rosetta.utility.excn._utility_excn_
)
entropy()
(in
RotamerLibraryScratchSpace
)
eval_non_residue_pair_energy()
(in
MaxSeqSepConstraintSet
)
EXCN_Pool_Converged
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
Enum
(in
CacheableDataType
)
eval_npd_atom_derivative()
(in
DockingScoreFunction
)
EXCN_Pool_ConvergedAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
Enum
(in
CacheableObserverType
)
eval_npd_atom_derivative()
(in
MinScoreScoreFunction
)
EXCN_Pool_ConvergedCAP
(in
rosetta.protocols.canonical_sampling.mc_convergence_checks._protocols_canonical_sampling_mc_convergence_checks_
)
Enum
(in
rosetta.protocols.forge.build.SegmentInsertConnectionScheme._protocols_forge_build_SegmentInsertConnectionScheme_
)
eval_npd_atom_derivative()
(in
ScoreFunction
)
EXCN_RangeError
(in
rosetta.utility.excn._utility_excn_
)
enumerate()
(in
StepWiseMonteCarloOptions
)
eval_npd_atom_derivative()
(in
SymmetricScoreFunction
)
EXCN_RangeErrorAP
(in
rosetta.utility.excn._utility_excn_
)
enumerate_ligand_rotamers()
(in
MatcherTask
)
eval_npd_atom_derivative()
(in
OtherContextScoreFunction
)
EXCN_RangeErrorCAP
(in
rosetta.utility.excn._utility_excn_
)
ENUMERATION
(in
IterativeBase
)
eval_omega_score_all()
(in
OmegaTether
)
EXCN_Resource_Definition
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
ENUMERATION
(in
IterationStage
)
eval_omega_score_residue()
(in
OmegaTether
)
EXCN_Resource_DefinitionAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
env
(in
ScoreType
)
eval_onebody_energies()
(in
DockingScoreFunction
)
EXCN_Resource_DefinitionCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
env
(in
rosetta.core.scoring._core_scoring_
)
eval_onebody_energies()
(in
MinScoreScoreFunction
)
EXCN_RosettaScriptsOption
(in
rosetta.utility.excn._utility_excn_
)
env
(in
rosetta.core.scoring
)
eval_onebody_energies()
(in
ScoreFunction
)
EXCN_RosettaScriptsOptionAP
(in
rosetta.utility.excn._utility_excn_
)
env
(in
rosetta
)
eval_onebody_energies()
(in
SymmetricScoreFunction
)
EXCN_RosettaScriptsOptionCAP
(in
rosetta.utility.excn._utility_excn_
)
env()
(in
EnvMover
)
eval_onebody_energies()
(in
OtherContextScoreFunction
)
EXCN_Stop_BFS
(in
rosetta.utility.graph._utility_graph_
)
env_destruction()
(in
ProtectedConformation
)
eval_p_aa_pp_score()
(in
Rama2BOffset
)
EXCN_Stop_BFSAP
(in
rosetta.utility.graph._utility_graph_
)
env_id()
(in
DofPassport
)
eval_PB_energy_residue()
(in
PoissonBoltzmannPotential
)
EXCN_Stop_BFSCAP
(in
rosetta.utility.graph._utility_graph_
)
EnvClaim
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
eval_r2bo_omega_score()
(in
Rama2BOffset
)
EXCN_VirtualRsd
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EnvClaimAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
eval_r2bo_rama_score()
(in
Rama2BOffset
)
EXCN_VirtualRsdAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EnvClaimBroker
(in
rosetta.protocols.environment._protocols_environment_
)
eval_rama_score_all()
(in
Ramachandran
)
EXCN_VirtualRsdCAP
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
EnvClaimBrokerAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_rama_score_all()
(in
Ramachandran2B
)
EXCN_Wrong_DB_Format
(in
rosetta.protocols.loophash._protocols_loophash_
)
EnvClaimBrokerCAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_rama_score_residue()
(in
Ramachandran
)
EXCN_Wrong_DB_FormatAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
EnvClaimCAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
eval_rama_score_residue()
(in
Ramachandran2B
)
EXCN_Wrong_DB_FormatCAP
(in
rosetta.protocols.loophash._protocols_loophash_
)
EnvCore
(in
rosetta.core.environment._core_environment_
)
eval_rama_score_residue_nonstandard_connection()
(in
Ramachandran
)
exdna_sample_level()
(in
ResidueLevelTask
)
EnvCoreAP
(in
rosetta.core.environment._core_environment_
)
eval_res()
(in
GoapEnergy
)
exdna_sample_level()
(in
ResidueLevelTask_
)
EnvCoreCAP
(in
rosetta.core.environment._core_environment_
)
eval_res_onebody_energies_for_minnode()
(in
rosetta.core.scoring._core_scoring_
)
exdna_sample_level()
(in
ExtraRotamersGeneric
)
EnvEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_res_pair_energy_for_minedge()
(in
rosetta.core.scoring._core_scoring_
)
exec()
(in
APBSWrapper
)
EnvEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
DunbrackEnergy
)
ExecutionMode
(in
PlaceProbeMover
)
EnvEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
CenRotDunEnergy
)
Exemplar
(in
rosetta.protocols.cluster._protocols_cluster_
)
EnvEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
HPatchEnergy
)
ExemplarAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
EnvEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
SurfaceEnergy
)
ExemplarCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
EnvEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
DNAChiEnergy
)
EXIT
(in
rosetta.core.scoring.packstat
)
environment
(in
rosetta.core
)
eval_residue_derivatives()
(in
ExactOccludedHbondSolEnergy
)
EXIT
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
environment
(in
rosetta.protocols
)
eval_residue_derivatives()
(in
OccludedHbondSolEnergy_onebody
)
EXIT
(in
EventType
)
Environment
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
FaMPEnvEnergy
)
exit_callback()
(in
PythonPyExitCallback
)
environment()
(in
ProtectedConformation
)
eval_residue_derivatives()
(in
FaMPEnvSmoothEnergy
)
exit_callback()
(in
PyExitCallback
)
EnvironmentAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
MPCbetaEnergy
)
exit_if_missing_heavy_atoms()
(in
FileDataOptions
)
EnvironmentCAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
MPEnvEnergy
)
expand()
(in
SearchPatternExpansion
)
EnvLabelSelector
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
eval_residue_derivatives()
(in
MPNonHelixPenalty
)
expand_loop_takeoff()
(in
StepWiseProteinModelerOptions
)
EnvLabelSelectorAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
eval_residue_derivatives()
(in
MPTerminiPenalty
)
expand_loop_takeoff()
(in
StepWiseProteinBackboneSampler
)
EnvLabelSelectorCAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
eval_residue_derivatives()
(in
BurialEnergy
)
expand_proton_chi()
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
EnvMover
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
CenRotEnvEnergy
)
experimental_technique_in_progress()
(in
HeaderInformation
)
EnvMoverAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
ContextDependentOneBodyEnergy
)
experimental_technique_to_string()
(in
HeaderInformation
)
EnvMoverCAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
ContextIndependentOneBodyEnergy
)
experimental_techniques()
(in
HeaderInformation
)
EnvMoverCreator
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
EnvEnergy
)
ExperimentalTechnique
(in
HeaderInformation
)
EnvMoverCreatorAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
EnvSmoothEnergy
)
ExperimentalTechnique_max
(in
ExperimentalTechnique
)
EnvMoverCreatorCAP
(in
rosetta.protocols.environment._protocols_environment_
)
eval_residue_derivatives()
(in
Fa_MbenvEnergy
)
ExperimentalTechnique_max
(in
HeaderInformation
)
EnvPairPotential
(in
rosetta.core.scoring._core_scoring_
)
eval_residue_derivatives()
(in
FreeDOF_Energy
)
ExperimentalTechnique_max_current
(in
ExperimentalTechnique
)
EnvPairPotentialAP
(in
rosetta.core.scoring._core_scoring_
)
eval_residue_derivatives()
(in
MembraneCbetaEnergy
)
ExperimentalTechnique_max_current
(in
HeaderInformation
)
EnvPairPotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
eval_residue_derivatives()
(in
MembraneEnvEnergy
)
ExpExpression
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
envsmooth
(in
ScoreType
)
eval_residue_derivatives()
(in
MembraneEnvSmoothEnergy
)
ExpExpressionAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
envsmooth
(in
rosetta.core.scoring._core_scoring_
)
eval_residue_derivatives()
(in
NMerPSSMEnergy
)
ExpExpressionCAP
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
envsmooth
(in
rosetta.core.scoring
)
eval_residue_derivatives()
(in
NMerRefEnergy
)
expid()
(in
RDC
)
envsmooth
(in
rosetta
)
eval_residue_derivatives()
(in
NMerSVMEnergy
)
ExpiryFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
envsmooth_zero_negatives()
(in
EnergyMethodOptions
)
eval_residue_derivatives()
(in
OmegaTetherEnergy
)
ExpiryFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
EnvSmoothEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
OneBodyEnergy
)
ExpiryFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
EnvSmoothEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
P_AA_Energy
)
ExpiryFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
EnvSmoothEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
P_AA_pp_Energy
)
ExpiryFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
EnvSmoothEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
RamachandranEnergy
)
ExpiryFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
EnvSmoothEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
ReferenceEnergy
)
explicit_ramp_constraints()
(in
RelaxProtocolBase
)
EnvSmoothEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
eval_residue_derivatives()
(in
ReferenceEnergyNoncanonical
)
exponential
(in
InterpolationType
)
enz_cst_params()
(in
EnzConstraintIO
)
eval_residue_derivatives()
(in
SequenceDependentRefEnergy
)
exponential
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
enz_cst_params_missing_in_pose()
(in
EnzConstraintIO
)
eval_residue_derivatives()
(in
SmoothEnvEnergy
)
exponential
(in
rosetta.protocols.canonical_sampling
)
enz_cst_params_size()
(in
EnzConstraintIO
)
eval_residue_derivatives()
(in
SymmetricLigandEnergy
)
exponential_deriv()
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
enz_cst_template_res()
(in
MatchConstraintFileInfo
)
eval_residue_derivatives()
(in
UnfoldedStateEnergy
)
export_only_low()
(in
ClusterBase
)
enz_input_data()
(in
MatcherTask
)
eval_residue_derivatives()
(in
WaterAdductIntraEnergy
)
export_packer_results()
(in
rosetta.protocols.farna._protocols_farna_
)
enz_io()
(in
EnzConstraintParameters
)
eval_residue_derivatives()
(in
YHHPlanarityEnergy
)
expose_counts()
(in
AdaptiveScoreHistogram
)
EnzConstraintIO
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
pHEnergy
)
exposed_hydrophobic_data
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
EnzConstraintIOAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
SugarBackboneEnergy
)
exposed_hydrophobic_dataAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
EnzConstraintIOCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
NVscore
)
exposed_hydrophobic_dataCAP
(in
rosetta.core.pack.interaction_graph._core_pack_interaction_graph_
)
EnzConstraintParameters
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
RNA_BulgeEnergy
)
ExposedHydrophobicsFilter
(in
rosetta.protocols.denovo_design.filters._protocols_denovo_design_filters_
)
EnzConstraintParametersAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
RNA_FullAtomVDW_BasePhosphate
)
ExposedHydrophobicsFilterAP
(in
rosetta.protocols.denovo_design.filters._protocols_denovo_design_filters_
)
EnzConstraintParametersCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
RNA_SugarCloseEnergy
)
ExposedHydrophobicsFilterCAP
(in
rosetta.protocols.denovo_design.filters._protocols_denovo_design_filters_
)
enzcst_io()
(in
EnzdesCstCache
)
eval_residue_derivatives()
(in
AACompositionEnergy
)
ExposedHydrophobicsFilterCreator
(in
rosetta.protocols.denovo_design.filters._protocols_denovo_design_filters_
)
EnzCstTemplateRes
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
InterchainEnvEnergy
)
ExposedHydrophobicsFilterCreatorAP
(in
rosetta.protocols.denovo_design.filters._protocols_denovo_design_filters_
)
EnzCstTemplateResAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_derivatives()
(in
SpecialRotamerEnergy
)
ExposedHydrophobicsFilterCreatorCAP
(in
rosetta.protocols.denovo_design.filters._protocols_denovo_design_filters_
)
EnzCstTemplateResAtoms
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
DunbrackEnergy
)
Expression
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
EnzCstTemplateResAtomsAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
CenRotDunEnergy
)
expression_parser
(in
rosetta.numeric
)
EnzCstTemplateResAtomsCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
HPatchEnergy
)
ExpressionAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
EnzCstTemplateResCache
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
SurfaceEnergy
)
ExpressionCAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
EnzCstTemplateResCacheAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
DNAChiEnergy
)
ExpressionCreator
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
EnzCstTemplateResCacheCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
ExactOccludedHbondSolEnergy
)
ExpressionCreatorAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
EnzCstTemplateResCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
OccludedHbondSolEnergy_onebody
)
ExpressionCreatorCAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
enzdes
(in
rosetta.protocols
)
eval_residue_dof_derivative()
(in
FaMPEnvEnergy
)
ext()
(in
FileName
)
enzdes_loops_file()
(in
EnzdesCacheableObserver
)
eval_residue_dof_derivative()
(in
FaMPEnvSmoothEnergy
)
extend
(in
rosetta
)
ENZDES_OBSERVER
(in
CacheableObserverType
)
eval_residue_dof_derivative()
(in
MPCbetaEnergy
)
extend
(in
LoopConfiguration
)
ENZDES_OBSERVER
(in
Enum
)
eval_residue_dof_derivative()
(in
MPEnvEnergy
)
extend
(in
rosetta.protocols.loops._protocols_loops_
)
EnzdesBaseProtocolAP
(in
rosetta.protocols.enzdes._protocols_enzdes_'
)
eval_residue_dof_derivative()
(in
MPNonHelixPenalty
)
extend
(in
rosetta.protocols.loops
)
EnzdesBaseProtocolCAP
(in
rosetta.protocols.enzdes._protocols_enzdes_'
)
eval_residue_dof_derivative()
(in
MPTerminiPenalty
)
extend()
(in
SecondaryStructure
)
EnzdesCacheableObserver
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
BurialEnergy
)
extend()
(in
StrandPairing
)
EnzdesCacheableObserverAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
CenRotEnvEnergy
)
extend()
(in
HyperRectangle
)
EnzdesCacheableObserverCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
ContextDependentOneBodyEnergy
)
extend_bounds()
(in
KDTree
)
EnzdesCstCache
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
ContextIndependentOneBodyEnergy
)
extend_CDR()
(in
AntibodyDesignModeler
)
EnzdesCstCacheAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
EnvEnergy
)
extend_sequence_mapping()
(in
rosetta.protocols.loops._protocols_loops_
)
EnzdesCstCacheCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
EnvSmoothEnergy
)
extend_to()
(in
StrandPairing
)
EnzdesCstParamCache
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
Fa_MbenvEnergy
)
Extended
(in
rosetta.protocols.antibody
)
EnzdesCstParamCacheAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
FreeDOF_Energy
)
Extended
(in
rosetta.protocols.antibody._protocols_antibody_
)
EnzdesCstParamCacheCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
MembraneCbetaEnergy
)
Extended
(in
H3BaseTypeEnum
)
EnzdesLoopInfo
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
MembraneEnvEnergy
)
extended()
(in
LoopFromFileData
)
EnzdesLoopInfoAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
MembraneEnvSmoothEnergy
)
ExtendedPoseInputStream
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
EnzdesLoopInfoCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
NMerPSSMEnergy
)
ExtendedPoseInputStreamAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
EnzdesLoopsFile
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
NMerRefEnergy
)
ExtendedPoseInputStreamCAP
(in
rosetta.core.import_pose.pose_stream._core_import_pose_pose_stream_
)
EnzdesLoopsFileAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
NMerSVMEnergy
)
ExtendedPoseMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
EnzdesLoopsFileCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
OmegaTetherEnergy
)
ExtendedPoseMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
EnzdesSeqRecoveryCache
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
OneBodyEnergy
)
ExtendedPoseMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
EnzdesSeqRecoveryCacheAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
P_AA_Energy
)
ExtendedPoseMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
EnzdesSeqRecoveryCacheCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
eval_residue_dof_derivative()
(in
P_AA_pp_Energy
)
ExtendedPoseMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
EPSILON
(in
rosetta.core.chemical.rna
)
eval_residue_dof_derivative()
(in
RamachandranEnergy
)
ExtendedPoseMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
EPSILON
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
eval_residue_dof_derivative()
(in
ReferenceEnergy
)
ExtendFailure
(in
rosetta.protocols.loops.loop_mover
)
EPSILON
(in
RNA_Torsion
)
eval_residue_dof_derivative()
(in
ReferenceEnergyNoncanonical
)
ExtendFailure
(in
rosetta.protocols.loops.loop_mover._protocols_loops_loop_mover_
)
epsilon()
(in
Pose
)
eval_residue_dof_derivative()
(in
SequenceDependentRefEnergy
)
ExtendFailure
(in
LoopResult
)
epsilon()
(in
DNABase
)
eval_residue_dof_derivative()
(in
SmoothEnvEnergy
)
extension()
(in
FileName
)
epsilon_aform()
(in
RNA_FittedTorsionInfo
)
eval_residue_dof_derivative()
(in
SymmetricLigandEnergy
)
Extent_T__core_fragment_picking_old_vall_VallSection_PageConstIterator__T
(in
rosetta.core.fragment.picking_old.concepts._core_fragment_picking_old_concepts_
)
epsilon_components()
(in
DNATorsionPotential
)
eval_residue_dof_derivative()
(in
UnfoldedStateEnergy
)
Extent_T__core_fragment_picking_old_vall_VallSection_PageConstIterator__TAP
(in
rosetta.core.fragment.picking_old.concepts._core_fragment_picking_old_concepts_
)
epsilon_north()
(in
RNA_FittedTorsionInfo
)
eval_residue_dof_derivative()
(in
WaterAdductIntraEnergy
)
Extent_T__core_fragment_picking_old_vall_VallSection_PageConstIterator__TCAP
(in
rosetta.core.fragment.picking_old.concepts._core_fragment_picking_old_concepts_
)
epsilon_south()
(in
RNA_FittedTorsionInfo
)
eval_residue_dof_derivative()
(in
YHHPlanarityEnergy
)
external_geom_id()
(in
Hit
)
epslon()
(in
rosetta.numeric.linear_algebra._numeric_linear_algebra_
)
eval_residue_dof_derivative()
(in
pHEnergy
)
external_geom_id()
(in
upstream_hit
)
equal_addresses()
(in
HierarchicalLevel
)
eval_residue_dof_derivative()
(in
SugarBackboneEnergy
)
external_sampler()
(in
ClassicMatchAlgorithm
)
equal_by_epsilon()
(in
rosetta.numeric._numeric_
)
eval_residue_dof_derivative()
(in
NVscore
)
external_score()
(in
Template
)
equal_length()
(in
xyzTriple_Real
)
eval_residue_dof_derivative()
(in
RNA_BulgeEnergy
)
ExternalEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
equal_length()
(in
xyzTriple_SSize
)
eval_residue_dof_derivative()
(in
RNA_FullAtomVDW_BasePhosphate
)
ExternalEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
equal_length()
(in
xyzTriple_Size
)
eval_residue_dof_derivative()
(in
RNA_SugarCloseEnergy
)
ExternalEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
equal_length()
(in
xyzTriple_double
)
eval_residue_dof_derivative()
(in
AACompositionEnergy
)
ExternalGeomSampler
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
equal_length()
(in
xyzTriple_float
)
eval_residue_dof_derivative()
(in
InterchainEnvEnergy
)
ExternalGeomSamplerAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
equal_length()
(in
xyzVector_Real
)
eval_residue_dof_derivative()
(in
SpecialRotamerEnergy
)
ExternalGeomSamplerCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
equal_length()
(in
xyzVector_SSize
)
eval_residue_pair_derivatives()
(in
CarbonHBondEnergy
)
ExternalTransform
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
equal_length()
(in
xyzVector_Size
)
eval_residue_pair_derivatives()
(in
ConstraintsEnergy
)
extra()
(in
BluePrint
)
equal_length()
(in
xyzVector_double
)
eval_residue_pair_derivatives()
(in
FullatomCustomPairDistanceEnergy
)
extra_broker_files()
(in
Batch
)
equal_length()
(in
xyzVector_float
)
eval_residue_pair_derivatives()
(in
CentroidDisulfideEnergy
)
extra_chi()
(in
StepWiseRNA_ModelerOptions
)
equals()
(in
EmbeddingDef
)
eval_residue_pair_derivatives()
(in
DisulfideMatchingEnergy
)
extra_coord_list()
(in
EggshellGrid
)
EqualsExpression
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
eval_residue_pair_derivatives()
(in
FullatomDisulfideEnergy
)
extra_data_1()
(in
WorkUnitBase
)
EqualsExpressionAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
eval_residue_pair_derivatives()
(in
DNATorsionEnergy
)
extra_data_2()
(in
WorkUnitBase
)
EqualsExpressionCAP
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
eval_residue_pair_derivatives()
(in
FA_ElecEnergy
)
extra_data_3()
(in
WorkUnitBase
)
erase()
(in
WriteableCacheableMap
)
eval_residue_pair_derivatives()
(in
FA_ElecEnergyAroAll
)
EXTRA_MINIMIZE
(in
rosetta.core.pose.full_model_info
)
erase()
(in
EdgeList
)
eval_residue_pair_derivatives()
(in
FA_ElecEnergyAroAro
)
EXTRA_MINIMIZE
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
erase()
(in
PDBPoseMap
)
eval_residue_pair_derivatives()
(in
FA_GrpElecEnergy
)
EXTRA_MINIMIZE
(in
FullModelParameterType
)
erase()
(in
ResidueConstraints
)
eval_residue_pair_derivatives()
(in
RNA_FA_ElecEnergy
)
EXTRA_MINIMIZE_JUMP
(in
rosetta.core.pose.full_model_info
)
erase()
(in
Cluster
)
eval_residue_pair_derivatives()
(in
ElecDensAllAtomCenEnergy
)
EXTRA_MINIMIZE_JUMP
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
erase()
(in
SingleResidueTorsionFragmentLibrary
)
eval_residue_pair_derivatives()
(in
ElecDensCenEnergy
)
EXTRA_MINIMIZE_JUMP
(in
FullModelParameterType
)
erase()
(in
PlacementAuctionMover
)
eval_residue_pair_derivatives()
(in
ElecDensEnergy
)
extra_minimize_res()
(in
FullModelInfo
)
erase()
(in
SilentStructStore
)
eval_residue_pair_derivatives()
(in
FastDensEnergy
)
extra_parameter()
(in
AtomType
)
erase()
(in
WorkUnitQueue
)
eval_residue_pair_derivatives()
(in
PattersonCorrEnergy
)
extra_parameter_index()
(in
AtomTypeSet
)
erase()
(in
WorkUnitQueue_Swapped
)
eval_residue_pair_derivatives()
(in
ElecDensAtomwiseEnergy
)
extra_parameter_indices()
(in
AtomTypeSet
)
erase()
(in
set_Real
)
eval_residue_pair_derivatives()
(in
AnalyticEtableEnergy
)
extra_residues_to_steal()
(in
ThreadingJob
)
erase()
(in
set_SSize
)
eval_residue_pair_derivatives()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
extra_size()
(in
BackboneDB
)
erase()
(in
set_Size
)
eval_residue_pair_derivatives()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
extrachi_cutoff()
(in
ResidueLevelTask
)
erase()
(in
set_char
)
eval_residue_pair_derivatives()
(in
TableLookupEtableEnergy
)
extrachi_cutoff()
(in
ResidueLevelTask_
)
erase()
(in
set_double
)
eval_residue_pair_derivatives()
(in
ContextDependentGeometricSolEnergy
)
extrachi_cutoff()
(in
ExtraRotamersGeneric
)
erase()
(in
set_float
)
eval_residue_pair_derivatives()
(in
ContextIndependentGeometricSolEnergy
)
extrachi_sample_level()
(in
ResidueLevelTask
)
erase()
(in
set_int
)
eval_residue_pair_derivatives()
(in
GeometricSolEnergyEvaluator
)
extrachi_sample_level()
(in
ResidueLevelTask_
)
erase()
(in
set_string
)
eval_residue_pair_derivatives()
(in
OccludedHbondSolEnergy
)
ExtraChiCutoff
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
erase()
(in
set_uint
)
eval_residue_pair_derivatives()
(in
HackAroEnergy
)
ExtraChiCutoffAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
erase()
(in
FileName
)
eval_residue_pair_derivatives()
(in
HBondEnergy
)
ExtraChiCutoffCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
erase()
(in
PathName
)
eval_residue_pair_derivatives()
(in
DDPscore
)
ExtraChiCutoffCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
erase_comment()
(in
SilentStruct
)
eval_residue_pair_derivatives()
(in
FaMPSolvEnergy
)
ExtraChiCutoffCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
erase_hit()
(in
Matcher
)
eval_residue_pair_derivatives()
(in
MPPairEnergy
)
ExtraChiCutoffCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
erase_rigid_body_confs_for_lig()
(in
EnzdesCacheableObserver
)
eval_residue_pair_derivatives()
(in
CartesianBondedEnergy
)
extract_asymmetric_unit()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
erfcc()
(in
rosetta.numeric.model_quality._numeric_model_quality_
)
eval_residue_pair_derivatives()
(in
CenHBEnergy
)
extract_asymmetric_unit_pdb_info()
(in
rosetta.core.pose.symmetry._core_pose_symmetry_
)
erraser()
(in
StepWiseMonteCarloOptions
)
eval_residue_pair_derivatives()
(in
CenPairEnergy
)
extract_continuous_chunks()
(in
rosetta.protocols.loops._protocols_loops_
)
errf()
(in
rosetta.numeric.statistics._numeric_statistics_
)
eval_residue_pair_derivatives()
(in
CenRotPairEnergy
)
extract_data_from_pose()
(in
LoopHashLibrary
)
errfc()
(in
rosetta.numeric.statistics._numeric_statistics_
)
eval_residue_pair_derivatives()
(in
ContextDependentLRTwoBodyEnergy
)
extract_Hbond_atoms_from_protein_rna_complex()
(in
GenPharmacophore
)
errfcx()
(in
rosetta.numeric.statistics._numeric_statistics_
)
eval_residue_pair_derivatives()
(in
ContextDependentTwoBodyEnergy
)
extract_pose_balls()
(in
xyzStripeHashPose
)
errfi()
(in
rosetta.numeric.statistics._numeric_statistics_
)
eval_residue_pair_derivatives()
(in
ContextIndependentLRTwoBodyEnergy
)
extract_rna_rings_from_protein_rna_complex()
(in
GenPharmacophore
)
Error()
(in
rosetta.basic._basic_
)
eval_residue_pair_derivatives()
(in
ContextIndependentTwoBodyEnergy
)
extract_rt()
(in
ConnectRight
)
error_check_requested_adducts()
(in
rosetta.core.chemical._core_chemical_
)
eval_residue_pair_derivatives()
(in
CustomAtomPairEnergy
)
extract_scores()
(in
rosetta.core.io.pdb._core_io_pdb_
)
error_message
(in
DaemonSetMessage
)
eval_residue_pair_derivatives()
(in
DNA_BaseEnergy
)
extract_secondary_structure_chunks()
(in
rosetta.protocols.loops._protocols_loops_
)
error_message
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
eval_residue_pair_derivatives()
(in
Fa_MbsolvEnergy
)
extract_tag_from_pose()
(in
rosetta.core.pose._core_pose_
)
error_message
(in
rosetta.protocols.pack_daemon
)
eval_residue_pair_derivatives()
(in
GaussianOverlapEnergy
)
ExtractAsymmetricPoseMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
espGrid_point_list()
(in
ElectrostaticpotentialGrid
)
eval_residue_pair_derivatives()
(in
GenBornEnergy
)
ExtractAsymmetricPoseMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
BoundFunc
)
eval_residue_pair_derivatives()
(in
GoapEnergy
)
ExtractAsymmetricPoseMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
OffsetPeriodicBoundFunc
)
eval_residue_pair_derivatives()
(in
HybridVDW_Energy
)
ExtractAsymmetricPoseMoverCreator
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
PeriodicBoundFunc
)
eval_residue_pair_derivatives()
(in
LK_BallEnergy
)
ExtractAsymmetricPoseMoverCreatorAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
DistanceFunc
)
eval_residue_pair_derivatives()
(in
LK_PolarNonPolarEnergy
)
ExtractAsymmetricPoseMoverCreatorCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
CBSG_Dihedral_Func
)
eval_residue_pair_derivatives()
(in
LK_hack
)
ExtractAsymmetricUnitMover
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
CB_Angle_Func
)
eval_residue_pair_derivatives()
(in
LongRangeTwoBodyEnergy
)
ExtractAsymmetricUnitMoverAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
CaCbCbCa_Dihedral_Func
)
eval_residue_pair_derivatives()
(in
MMBondAngleEnergy
)
ExtractAsymmetricUnitMoverCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
CaCbCb_Angle_Func
)
eval_residue_pair_derivatives()
(in
MMBondLengthEnergy
)
ExtractAsymmetricUnitMoverCreator
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
Cb_Distance_Func
)
eval_residue_pair_derivatives()
(in
MMLJEnergyInter
)
ExtractAsymmetricUnitMoverCreatorAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
Cen_Distance_Func
)
eval_residue_pair_derivatives()
(in
MMLJEnergyIntra
)
ExtractAsymmetricUnitMoverCreatorCAP
(in
rosetta.protocols.simple_moves.symmetry._protocols_simple_moves_symmetry_
)
estimate_dfunc()
(in
NCaCaC_Dihedral_Func
)
eval_residue_pair_derivatives()
(in
MMTorsionEnergy
)
ExtractSmallest()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
estimate_dfunc()
(in
SGSG_Dihedral_Func
)
eval_residue_pair_derivatives()
(in
MembraneCenPairEnergy
)
ExtractSubposeMover
(in
rosetta.protocols.matdes._protocols_matdes_
)
estimate_dfunc()
(in
SG_Dist_Func
)
eval_residue_pair_derivatives()
(in
PairEnergy
)
ExtractSubposeMoverAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
estimate_dfunc()
(in
AmberPeriodicFunc
)
eval_residue_pair_derivatives()
(in
PeptideBondEnergy
)
ExtractSubposeMoverCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
estimate_dfunc()
(in
CharmmPeriodicFunc
)
eval_residue_pair_derivatives()
(in
PoissonBoltzmannEnergy
)
ExtractSubposeMoverCreator
(in
rosetta.protocols.matdes._protocols_matdes_
)
estimate_dfunc()
(in
CircularGeneral1D_Func
)
eval_residue_pair_derivatives()
(in
ProClosureEnergy
)
ExtractSubposeMoverCreatorAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
estimate_dfunc()
(in
CircularHarmonicFunc
)
eval_residue_pair_derivatives()
(in
Rama2BOffsetEnergy
)
ExtractSubposeMoverCreatorCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
estimate_dfunc()
(in
CircularPowerFunc
)
eval_residue_pair_derivatives()
(in
RamachandranEnergy2B
)
ExtraQuadraticRepulsion
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
estimate_dfunc()
(in
CircularSigmoidalFunc
)
eval_residue_pair_derivatives()
(in
ShortRangeTwoBodyEnergy
)
ExtraQuadraticRepulsionAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
estimate_dfunc()
(in
CircularSplineFunc
)
eval_residue_pair_derivatives()
(in
SmoothCenPairEnergy
)
ExtraQuadraticRepulsionCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
estimate_dfunc()
(in
ConstantFunc
)
eval_residue_pair_derivatives()
(in
SuckerEnergy
)
ExtraRotamers
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
CountViolFunc
)
eval_residue_pair_derivatives()
(in
TwoBodyEnergy
)
ExtraRotamersAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
EtableFunc
)
eval_residue_pair_derivatives()
(in
WaterAdductHBondEnergy
)
ExtraRotamersCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
FadeFunc
)
eval_residue_pair_derivatives()
(in
DFIRE_Energy
)
ExtraRotamersCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
FlatHarmonicFunc
)
eval_residue_pair_derivatives()
(in
OrbitalsScore
)
ExtraRotamersCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
Func
)
eval_residue_pair_derivatives()
(in
RNA_FullAtomStackingEnergy
)
ExtraRotamersCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
GaussianChainDoubleFunc
)
eval_residue_pair_derivatives()
(in
RNA_JR_SuiteEnergy
)
ExtraRotamersGeneric
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
GaussianChainFunc
)
eval_residue_pair_derivatives()
(in
RNA_LJ_BaseEnergy
)
ExtraRotamersGenericAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
GaussianChainQuadrupleFunc
)
eval_residue_pair_derivatives()
(in
RNA_Mg_Energy
)
ExtraRotamersGenericCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
GaussianChainSingleFunc
)
eval_residue_pair_derivatives()
(in
RNA_PairwiseLowResolutionEnergy
)
ExtraRotamersGenericCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
GaussianChainTripleFunc
)
eval_residue_pair_derivatives()
(in
RNA_SuiteEnergy
)
ExtraRotamersGenericCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
GaussianFunc
)
eval_residue_pair_derivatives()
(in
RNA_TorsionEnergy
)
ExtraRotamersGenericCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
estimate_dfunc()
(in
HarmonicFunc
)
eval_residue_pair_derivatives()
(in
RNA_VDW_Energy
)
ExtraRotSample
(in
rosetta.core.pack.task._core_pack_task_
)
estimate_dfunc()
(in
IdentityFunc
)
eval_residue_pair_derivatives()
(in
StackElecEnergy
)
ExtraRotSampleCardinality
(in
rosetta
)
estimate_dfunc()
(in
KarplusFunc
)
eval_residue_pair_derivatives()
(in
RNA_DataBackboneEnergy
)
ExtraRotSampleCardinality
(in
rosetta.core.pack.task
)
estimate_dfunc()
(in
LinearPenaltyFunction
)
eval_residue_pair_derivatives()
(in
symEnergy
)
ExtraRotSampleCardinality
(in
ExtraRotSample
)
estimate_dfunc()
(in
MinMultiHarmonicFunc
)
eval_residue_pair_derivatives()
(in
InterchainPairEnergy
)
ExtraRotSampleCardinality
(in
rosetta.core.pack.task._core_pack_task_
)
estimate_dfunc()
(in
MixtureFunc
)
eval_respair_atom_derivative()
(in
Constraints
)
extras
(in
rosetta
)
estimate_dfunc()
(in
PeriodicFunc
)
eval_respair_group_coulomb()
(in
GroupElec
)
extras
(in
LoopConfiguration
)
estimate_dfunc()
(in
SOGFunc
)
eval_respair_group_derivatives()
(in
GroupElec
)
extras
(in
rosetta.protocols.loops._protocols_loops_
)
estimate_dfunc()
(in
ScalarWeightedFunc
)
eval_rna_base_pair_energy()
(in
RNA_LowResolutionPotential
)
extras
(in
rosetta.protocols.loops
)
estimate_dfunc()
(in
SigmoidFunc
)
eval_rotameric_energy_bb_dof_deriv()
(in
SingleResidueCenrotLibrary
)
ExtraScoreEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
estimate_dfunc()
(in
SkipViolFunc
)
eval_rotameric_energy_deriv()
(in
SingleResidueCenrotLibrary
)
ExtraScoreEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
estimate_dfunc()
(in
SoedingFunc
)
eval_score()
(in
RNA_SuitePotential
)
ExtraScoreEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
estimate_dfunc()
(in
SplineFunc
)
eval_scsc_sr2b_energies()
(in
rosetta.core.scoring._core_scoring_
)
ExtraThreadingMover
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
estimate_dfunc()
(in
SquareWell2Func
)
eval_tuple()
(in
HBond
)
ExtraThreadingMoverAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
estimate_dfunc()
(in
SquareWellFunc
)
eval_twobody_neighbor_energies()
(in
DockingScoreFunction
)
ExtraThreadingMoverCAP
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
estimate_dfunc()
(in
SumFunc
)
eval_twobody_neighbor_energies()
(in
MinScoreScoreFunction
)
extreme_value_removal()
(in
DdgFilter
)
estimate_dfunc()
(in
TopOutFunc
)
eval_twobody_neighbor_energies()
(in
ScoreFunction
)
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