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C
C
(in
rosetta.protocols.forge.build.SegmentInsertConnectionScheme
)
clear_info()
(in
EnergyCutRotamerTrialsMover
)
ConstraintPreparer
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
C
(in
rosetta.protocols.forge.build.SegmentInsertConnectionScheme._protocols_forge_build_SegmentInsertConnectionScheme_
)
clear_info()
(in
ExtendedPoseMover
)
ConstraintPreparerAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
C
(in
Enum
)
clear_info()
(in
FavorSequenceProfile
)
ConstraintPreparerCAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
C()
(in
CrystInfo
)
clear_info()
(in
FavorSymmetricSequence
)
ConstraintPreparerCreator
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
C()
(in
BB_Pos
)
clear_info()
(in
FindConsensusSequence
)
ConstraintPreparerCreatorAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
C()
(in
OneGaussianScattering
)
clear_info()
(in
ForceDisulfidesMover
)
ConstraintPreparerCreatorCAP
(in
rosetta.protocols.abinitio.abscript._protocols_abinitio_abscript_
)
C()
(in
OneGaussianScattering
)
clear_info()
(in
GenericMonteCarloMover
)
constraints
(in
rosetta.core.scoring
)
C()
(in
BB_Pos
)
clear_info()
(in
GreenPacker
)
Constraints
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C1_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_info()
(in
LoadPDBMover
)
constraints
(in
rosetta.protocols.antibody
)
C1_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
LoadUnboundRotMover
)
constraints
(in
rosetta.protocols.forge
)
C1_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
MSDMover
)
constraints()
(in
Constraints
)
C1_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_info()
(in
MakePolyXMover
)
constraints()
(in
CstMinimizationData
)
C1_AMINO_SUGAR
(in
rosetta
)
clear_info()
(in
MembraneTopology
)
constraints()
(in
Template
)
C1_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
MinMover
)
constraints()
(in
HotspotStubSet
)
C1_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
MinPackMover
)
constraints_additional
(in
rosetta.protocols
)
C1_AMINO_SUGAR
(in
VariantType
)
clear_info()
(in
MissingDensityToJumpMover
)
constraints_lr
(in
LongRangeEnergyType
)
C1_BRANCH_POINT
(in
rosetta
)
clear_info()
(in
ModifyVariantTypeMover
)
constraints_lr
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C1_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_info()
(in
MonteCarloRecover
)
constraints_lr
(in
rosetta.core.scoring.methods
)
C1_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
MonteCarloReset
)
constraints_NtoC()
(in
rosetta.protocols.flxbb._protocols_flxbb_
)
C1_BRANCH_POINT
(in
VariantType
)
clear_info()
(in
MonteCarloTest
)
constraints_only()
(in
IdealizeMover
)
C1_DEOXY_SUGAR
(in
rosetta
)
clear_info()
(in
MutateResidue
)
constraints_sheet()
(in
rosetta.protocols.flxbb._protocols_flxbb_
)
C1_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
O2M_MutateMover
)
ConstraintsAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C1_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
PDBReloadMover
)
ConstraintsCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C1_DEOXY_SUGAR
(in
VariantType
)
clear_info()
(in
PSSM2BfactorMover
)
ConstraintScoreCutoffFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C1_MODIFIED
(in
rosetta
)
clear_info()
(in
PackRotamersMover
)
ConstraintScoreCutoffFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C1_MODIFIED
(in
rosetta.core.chemical
)
clear_info()
(in
PackRotamersMoverLazy
)
ConstraintScoreCutoffFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C1_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
PeptideStapleMover
)
ConstraintScoreCutoffFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C1_MODIFIED
(in
ResidueProperty
)
clear_info()
(in
PeriodicBoxMover
)
ConstraintScoreCutoffFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C1_PHOSPHATE
(in
rosetta
)
clear_info()
(in
ProlineFixMover
)
ConstraintScoreCutoffFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C1_PHOSPHATE
(in
rosetta.core.chemical
)
clear_info()
(in
RandomOmegaFlipMover
)
ConstraintsEnergy
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C1_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
RandomTorsionMover
)
ConstraintsEnergyAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C1_PHOSPHATE
(in
VariantType
)
clear_info()
(in
RepackSidechainsMover
)
ConstraintsEnergyCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
c1prime_atom_index()
(in
RNA_ResidueType
)
clear_info()
(in
RepeatPropagationMover
)
ConstraintsEnergyCreator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C2_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_info()
(in
ReportEffectivePKA
)
ConstraintsEnergyCreatorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C2_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
RepulsiveOnlyMover
)
ConstraintsEnergyCreatorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C2_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
ResetBaselineMover
)
ConstraintSet
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C2_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_info()
(in
ResidueTypeConstraintMover
)
ConstraintSetAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C2_AMINO_SUGAR
(in
rosetta
)
clear_info()
(in
ReturnSidechainMover
)
ConstraintSetCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C2_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
RingConformationMover
)
ConstraintSetMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C2_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
RotamerTrialsMinMover
)
ConstraintSetMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C2_AMINO_SUGAR
(in
VariantType
)
clear_info()
(in
RotamerTrialsMover
)
ConstraintSetMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C2_BRANCH_POINT
(in
rosetta
)
clear_info()
(in
RotamerizeMover
)
ConstraintSetMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C2_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_info()
(in
SaneMinMover
)
ConstraintSetMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C2_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
ScoreMover
)
ConstraintSetMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C2_BRANCH_POINT
(in
VariantType
)
clear_info()
(in
SequenceProfileMover
)
ConstraintSetScore
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
C2_DEOXY_SUGAR
(in
rosetta
)
clear_info()
(in
SetReturningPackRotamersMover
)
ConstraintSetScoreAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
C2_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
SetTorsion
)
ConstraintSetScoreCAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
C2_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
ShakeStructureMover
)
CONSTRUCT_DISTANCE_MATRIX
(in
rosetta.basic
)
C2_DEOXY_SUGAR
(in
VariantType
)
clear_info()
(in
ShearMover
)
CONSTRUCT_DISTANCE_MATRIX
(in
rosetta.basic._basic_
)
C2_KETOALDONIC_ACID
(in
rosetta
)
clear_info()
(in
ShortBackrubMover
)
CONSTRUCT_DISTANCE_MATRIX
(in
ProfTag
)
C2_KETOALDONIC_ACID
(in
rosetta.core.chemical
)
clear_info()
(in
SmallMover
)
construct_kd_tree()
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
C2_KETOALDONIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
SuperimposeMover
)
construct_poly_ala_pose()
(in
rosetta.protocols.denovo_design._protocols_denovo_design_
)
C2_KETOALDONIC_ACID
(in
VariantType
)
clear_info()
(in
SwitchChainOrderMover
)
construct_poly_ala_pose()
(in
rosetta.protocols.toolbox.pose_manipulation._protocols_toolbox_pose_manipulation_
)
C2_MODIFIED
(in
rosetta
)
clear_info()
(in
SwitchResidueTypeSetMover
)
construct_poly_uniq_restype_pose()
(in
rosetta.protocols.toolbox.pose_manipulation._protocols_toolbox_pose_manipulation_
)
C2_MODIFIED
(in
rosetta.core.chemical
)
clear_info()
(in
TailsScoreMover
)
construct_poly_XXX_pose()
(in
rosetta.protocols.toolbox.pose_manipulation._protocols_toolbox_pose_manipulation_
)
C2_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
TaskAwareMinMover
)
ConstScore
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
C2_MODIFIED
(in
ResidueProperty
)
clear_info()
(in
TorsionDOFMover
)
ConstScoreAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
C2_PHOSPHATE
(in
rosetta
)
clear_info()
(in
TorsionSetMover
)
ConstScoreCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
C2_PHOSPHATE
(in
rosetta.core.chemical
)
clear_info()
(in
Tumble
)
Contact
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C2_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
UniformRotationMover
)
Contact
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C2_PHOSPHATE
(in
VariantType
)
clear_info()
(in
UniformTranslationMover
)
contact()
(in
DnaNeighbor
)
c2n
(in
Direction
)
clear_info()
(in
VirtualRootMover
)
contact_buried_problematic_res()
(in
EnzdesLoopInfo
)
c2n
(in
rosetta.protocols.rigid._protocols_rigid_
)
clear_info()
(in
ddG
)
contact_dist()
(in
InterfacePackingFilter
)
c2n
(in
rosetta.protocols.rigid
)
clear_info()
(in
AsymFoldandDockMoveRbJumpMover
)
contact_distance()
(in
NcontactsCalculator
)
c2prime_atom_index()
(in
RNA_ResidueType
)
clear_info()
(in
AsymFoldandDockRbTrialMover
)
contact_distance()
(in
InterlockingAromaFilter
)
C3_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_info()
(in
InitializeByBins
)
contact_distance2()
(in
rosetta.protocols.dna._protocols_dna_
)
C3_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
PerturbByBins
)
contact_list()
(in
Interface
)
C3_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
ChiralMover
)
contact_map
(in
rosetta.protocols
)
C3_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_info()
(in
HbsPatcher
)
contact_name()
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C3_AMINO_SUGAR
(in
rosetta
)
clear_info()
(in
OopDPuckMinusMover
)
contact_order()
(in
StrandPairing
)
C3_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
OopDPuckPlusMover
)
contact_order()
(in
PairingStatEntry
)
C3_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
OopMover
)
contact_type()
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C3_AMINO_SUGAR
(in
VariantType
)
clear_info()
(in
OopPatcher
)
ContactAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_BRANCH_POINT
(in
rosetta
)
clear_info()
(in
OopPuckMinusMover
)
ContactAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C3_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_info()
(in
OopPuckPlusMover
)
ContactCAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
OopRandomPuckMover
)
ContactCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C3_BRANCH_POINT
(in
VariantType
)
clear_info()
(in
OopRandomSmallMover
)
ContactCounts
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C3_DEOXY_SUGAR
(in
rosetta
)
clear_info()
(in
RationalMonteCarlo
)
ContactCountsAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C3_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
JumpRotamerSidechainMover
)
ContactCountsCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C3_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
PerturbChiSidechainMover
)
ContactMap
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_DEOXY_SUGAR
(in
VariantType
)
clear_info()
(in
PerturbRotamerSidechainMover
)
ContactMapAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_KETOALDONIC_ACID
(in
rosetta
)
clear_info()
(in
SetChiMover
)
ContactMapCAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_KETOALDONIC_ACID
(in
rosetta.core.chemical
)
clear_info()
(in
SidechainMCMover
)
ContactMapCreator
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_KETOALDONIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
SidechainMover
)
ContactMapCreatorAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_KETOALDONIC_ACID
(in
VariantType
)
clear_info()
(in
SidechainMoverBase
)
ContactMapCreatorCAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C3_MODIFIED
(in
rosetta
)
clear_info()
(in
DetectSymmetry
)
ContactMapEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C3_MODIFIED
(in
rosetta.core.chemical
)
clear_info()
(in
ExtractAsymmetricPoseMover
)
ContactMapEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C3_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
ExtractAsymmetricUnitMover
)
ContactMapEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C3_MODIFIED
(in
ResidueProperty
)
clear_info()
(in
FaSymDockingSlideTogether
)
ContactMapEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C3_PHOSPHATE
(in
rosetta
)
clear_info()
(in
SetupForSymmetryMover
)
ContactMapEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C3_PHOSPHATE
(in
rosetta.core.chemical
)
clear_info()
(in
SetupNCSMover
)
ContactMapEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
C3_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
SymDockingInitialPerturbation
)
ContactOrderEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C3_PHOSPHATE
(in
VariantType
)
clear_info()
(in
SymDockingSlideIntoContact
)
ContactOrderEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C4_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_info()
(in
SymEnergyCutRotamerTrialsMover
)
ContactOrderEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C4_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
SymMinMover
)
ContactOrderEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C4_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
SymPackRotamersMover
)
ContactOrderEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C4_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_info()
(in
SymRotamerTrialsMover
)
ContactOrderEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C4_AMINO_SUGAR
(in
rosetta
)
clear_info()
(in
SymShakeStructureMover
)
ContactPartner
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C4_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
SymmetricRMSMover
)
ContactPartnerAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C4_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
TaskAwareSymMinMover
)
ContactPartnerCAP
(in
rosetta.protocols.contact_map._protocols_contact_map_
)
C4_AMINO_SUGAR
(in
VariantType
)
clear_info()
(in
StepWiseProteinMinimizer
)
CONTACTS
(in
rosetta.core.conformation.symmetry
)
C4_BRANCH_POINT
(in
rosetta
)
clear_info()
(in
StepWiseProteinPoseSetup
)
CONTACTS
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
C4_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_info()
(in
StepWiseRNA_PoseSetup
)
CONTACTS
(in
SlideCriteriaType
)
C4_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StepWiseConnectionSampler
)
contacts()
(in
Rose
)
C4_BRANCH_POINT
(in
VariantType
)
clear_info()
(in
StepWiseMinimizer
)
contacts_naive()
(in
Rose
)
C4_DEOXY_SUGAR
(in
rosetta
)
clear_info()
(in
StepWiseModeler
)
ContactStruct
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
C4_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
SideChainCopier
)
ContactStructAP
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
C4_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StepWisePacker
)
ContactStructCAP
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
C4_DEOXY_SUGAR
(in
VariantType
)
clear_info()
(in
PolarHydrogenPacker
)
ContactType
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
C4_KETOALDONIC_ACID
(in
rosetta
)
clear_info()
(in
PrecomputedLibraryMover
)
contain_residue_at_seq_num()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
C4_KETOALDONIC_ACID
(in
rosetta.core.chemical
)
clear_info()
(in
StepWiseProteinBackboneSampler
)
contains()
(in
StrandPairing
)
C4_KETOALDONIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StepWiseProteinCCD_Closer
)
contains()
(in
Circle
)
C4_KETOALDONIC_ACID
(in
VariantType
)
clear_info()
(in
StepWiseProteinCCD_MultiPoseCloser
)
contains()
(in
Octree2D
)
C4_MODIFIED
(in
rosetta
)
clear_info()
(in
StepWiseProteinKIC_LoopBridger
)
contains()
(in
SixDCoordinateBinner
)
C4_MODIFIED
(in
rosetta.core.chemical
)
clear_info()
(in
BulgeApplyMover
)
contains()
(in
DnaChains
)
C4_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
BulgeUnApplyMover
)
contains()
(in
Interval
)
C4_MODIFIED
(in
ResidueProperty
)
clear_info()
(in
RNA_ChainClosureChecker
)
contains()
(in
rosetta.protocols.sparta._protocols_sparta_
)
C4_PHOSPHATE
(in
rosetta
)
clear_info()
(in
RNA_HelixAssembler
)
Contains()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
C4_PHOSPHATE
(in
rosetta.core.chemical
)
clear_info()
(in
O2PrimePacker
)
contains_atom_type()
(in
MMAtomTypeSet
)
C4_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
MultiPhosphateSampler
)
contains_atom_type()
(in
GasteigerAtomTypeSet
)
C4_PHOSPHATE
(in
VariantType
)
clear_info()
(in
PhosphateMover
)
contains_bond_length()
(in
IdealBondLengthSet
)
c4prime_atom_index()
(in
RNA_ResidueType
)
clear_info()
(in
SugarInstantiateMover
)
contains_carbohydrate_residues()
(in
Conformation
)
C5_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_info()
(in
SugarVirtualizeMover
)
contains_element_type()
(in
ElementSet
)
C5_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
VirtualSugarJustInTimeInstantiator
)
contains_position()
(in
EnzConstraintIO
)
C5_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
VirtualSugarSampler
)
contains_position()
(in
EnzCstTemplateResCache
)
C5_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_info()
(in
VirtualSugarSamplerFromStringList
)
contains_position()
(in
EnzdesCstCache
)
C5_AMINO_SUGAR
(in
rosetta
)
clear_info()
(in
StepWiseMonteCarlo
)
contains_position()
(in
EnzdesCstParamCache
)
C5_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
AddMover
)
contains_protein()
(in
rosetta.protocols.stepwise.modeler.protein._protocols_stepwise_modeler_protein_
)
C5_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
AddOrDeleteMover
)
contains_seqpos()
(in
Frame
)
C5_AMINO_SUGAR
(in
VariantType
)
clear_info()
(in
DeleteMover
)
context_graph()
(in
Energies
)
C5_BRANCH_POINT
(in
rosetta
)
clear_info()
(in
FromScratchMover
)
ContextDependentGeometricSolEnergy
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C5_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_info()
(in
ResampleMover
)
ContextDependentGeometricSolEnergyAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C5_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StepWiseMasterMover
)
ContextDependentGeometricSolEnergyCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C5_BRANCH_POINT
(in
VariantType
)
clear_info()
(in
RNA_AddDeleteMonteCarlo
)
ContextDependentGeometricSolEnergyCreator
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C5_DEOXY_SUGAR
(in
rosetta
)
clear_info()
(in
RNA_O2PrimeMover
)
ContextDependentGeometricSolEnergyCreatorAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C5_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
RNA_TorsionMover
)
ContextDependentGeometricSolEnergyCreatorCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C5_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
JumpStepWiseSampler
)
ContextDependentLRTwoBodyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_DEOXY_SUGAR
(in
VariantType
)
clear_info()
(in
MC_Comb
)
ContextDependentLRTwoBodyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_KETOALDONIC_ACID
(in
rosetta
)
clear_info()
(in
MC_OneTorsion
)
ContextDependentLRTwoBodyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_KETOALDONIC_ACID
(in
rosetta.core.chemical
)
clear_info()
(in
NoOpStepWiseSampler
)
ContextDependentOneBodyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_KETOALDONIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StepWiseSamplerAny
)
ContextDependentOneBodyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_KETOALDONIC_ACID
(in
VariantType
)
clear_info()
(in
StepWiseSamplerComb
)
ContextDependentOneBodyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_MODIFIED
(in
rosetta
)
clear_info()
(in
StepWiseSamplerOneTorsion
)
ContextDependentTwoBodyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_MODIFIED
(in
rosetta.core.chemical
)
clear_info()
(in
StepWiseSamplerOneValue
)
ContextDependentTwoBodyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StepWiseSamplerOneValueComb
)
ContextDependentTwoBodyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C5_MODIFIED
(in
ResidueProperty
)
clear_info()
(in
StepWiseSamplerSized
)
ContextGraph
(in
rosetta.core.scoring._core_scoring_
)
C5_PHOSPHATE
(in
rosetta
)
clear_info()
(in
StepWiseSamplerSizedAny
)
ContextGraphAP
(in
rosetta.core.scoring._core_scoring_
)
C5_PHOSPHATE
(in
rosetta.core.chemical
)
clear_info()
(in
StepWiseSamplerSizedComb
)
ContextGraphCAP
(in
rosetta.core.scoring._core_scoring_
)
C5_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
CopyDofStepWiseSampler
)
ContextGraphFactory
(in
rosetta.core.scoring._core_scoring_
)
C5_PHOSPHATE
(in
VariantType
)
clear_info()
(in
ResidueAlternativeStepWiseSampler
)
ContextGraphFactoryAP
(in
rosetta.core.scoring._core_scoring_
)
C6_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_info()
(in
ResidueAlternativeStepWiseSamplerComb
)
ContextGraphFactoryCAP
(in
rosetta.core.scoring._core_scoring_
)
C6_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
ResidueListStepWiseSampler
)
ContextGraphType
(in
rosetta.core.scoring._core_scoring_
)
C6_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
InputStreamStepWiseSampler
)
ContextIndependentGeometricSolEnergy
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C6_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_info()
(in
ProteinBetaAntiParallelStepWiseSampler
)
ContextIndependentGeometricSolEnergyAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C6_AMINO_SUGAR
(in
rosetta
)
clear_info()
(in
ProteinFragmentStepWiseSampler
)
ContextIndependentGeometricSolEnergyCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C6_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
ProteinMainChainStepWiseSampler
)
ContextIndependentGeometricSolEnergyCreator
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C6_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
RigidBodyStepWiseSampler
)
ContextIndependentGeometricSolEnergyCreatorAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C6_AMINO_SUGAR
(in
VariantType
)
clear_info()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
ContextIndependentGeometricSolEnergyCreatorCAP
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
C6_BRANCH_POINT
(in
rosetta
)
clear_info()
(in
RigidBodyStepWiseSamplerWithResidueList
)
ContextIndependentLRTwoBodyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_info()
(in
RNA_ChiStepWiseSampler
)
ContextIndependentLRTwoBodyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
RNA_KIC_Sampler
)
ContextIndependentLRTwoBodyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_BRANCH_POINT
(in
VariantType
)
clear_info()
(in
RNA_KinematicCloser
)
ContextIndependentOneBodyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_DEOXY_SUGAR
(in
rosetta
)
clear_info()
(in
RNA_MC_MultiSuite
)
ContextIndependentOneBodyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
RNA_MC_Sugar
)
ContextIndependentOneBodyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
RNA_MC_Suite
)
ContextIndependentTwoBodyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_DEOXY_SUGAR
(in
VariantType
)
clear_info()
(in
RNA_NucleosideStepWiseSampler
)
ContextIndependentTwoBodyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_KETOALDONIC_ACID
(in
rosetta
)
clear_info()
(in
RNA_SugarStepWiseSampler
)
ContextIndependentTwoBodyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
C6_KETOALDONIC_ACID
(in
rosetta.core.chemical
)
clear_info()
(in
RNA_SuiteStepWiseSampler
)
contiguous_monomers()
(in
SymmetryInfo
)
C6_KETOALDONIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StepWiseCSA_JobDistributor
)
ContingentAcceptMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C6_KETOALDONIC_ACID
(in
VariantType
)
clear_info()
(in
StepWiseJobDistributor
)
ContingentAcceptMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C6_MODIFIED
(in
rosetta
)
clear_info()
(in
StepWiseMonteCarloJobDistributor
)
ContingentAcceptMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C6_MODIFIED
(in
rosetta.core.chemical
)
clear_info()
(in
CentroidRelaxMover
)
ContingentAcceptMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C6_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
FullatomRelaxMover
)
ContingentAcceptMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C6_MODIFIED
(in
ResidueProperty
)
clear_info()
(in
SurfaceDockingProtocol
)
ContingentAcceptMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
C6_PHOSPHATE
(in
rosetta
)
clear_info()
(in
SurfaceOrientMover
)
ContingentFilter
(in
rosetta.protocols.filters._protocols_filters_
)
C6_PHOSPHATE
(in
rosetta.core.chemical
)
clear_info()
(in
SymDockBaseProtocol
)
ContingentFilterAP
(in
rosetta.protocols.filters._protocols_filters_
)
C6_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
SymDockProtocol
)
ContingentFilterCAP
(in
rosetta.protocols.filters._protocols_filters_
)
C6_PHOSPHATE
(in
VariantType
)
clear_info()
(in
SymDockingHiRes
)
ContingentFilterCreator
(in
rosetta.protocols.filters._protocols_filters_
)
C7_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_info()
(in
SymDockingLowRes
)
ContingentFilterCreatorAP
(in
rosetta.protocols.filters._protocols_filters_
)
C7_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
SymFoldandDockMoveRbJumpMover
)
ContingentFilterCreatorCAP
(in
rosetta.protocols.filters._protocols_filters_
)
C7_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
SymFoldandDockRbTrialMover
)
continue_at_dimension()
(in
LexicographicalIterator
)
C7_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_info()
(in
SymFoldandDockSlideTrialMover
)
continue_slide()
(in
SymmetrySlider
)
C7_AMINO_SUGAR
(in
rosetta
)
clear_info()
(in
SymInterfaceSidechainMinMover
)
continuous()
(in
GoapEnergy
)
C7_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_info()
(in
SymSidechainMinMover
)
ContinuousRotamerSet
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
C7_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
MPSymDockMover
)
ContinuousRotamerSetAP
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
C7_AMINO_SUGAR
(in
VariantType
)
clear_info()
(in
AlignPoseToInvrotTreeMover
)
ContinuousRotamerSetCAP
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
C7_BRANCH_POINT
(in
rosetta
)
clear_info()
(in
StoreCombinedStoredTasksMover
)
ContinuousRotamerSets
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
C7_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_info()
(in
StoreCompoundTaskMover
)
ContinuousRotamerSetsAP
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
C7_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
StoreTaskMover
)
ContinuousRotamerSetsCAP
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
C7_BRANCH_POINT
(in
VariantType
)
clear_info()
(in
UnfoldedStateEnergyCalculatorMover
)
control_grid_param()
(in
PcsGridSearchParameter
)
C7_DEOXY_SUGAR
(in
rosetta
)
clear_initialization()
(in
DnaInterfacePacker
)
controlling_chi_for_atom()
(in
UpstreamResTypeGeometry
)
C7_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_input_files()
(in
Inline_File_Provider
)
ControlStrength
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
C7_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_internals()
(in
PatchdockReader
)
conventional_chains()
(in
FullModelInfo
)
C7_DEOXY_SUGAR
(in
VariantType
)
clear_jumps()
(in
RigidBodyPerturbNoCenterMover
)
conventional_chains()
(in
FullModelParameters
)
C7_KETOALDONIC_ACID
(in
rosetta
)
clear_jumps()
(in
InterfaceInfo
)
conventional_numbering()
(in
FullModelInfo
)
C7_KETOALDONIC_ACID
(in
rosetta.core.chemical
)
clear_keywords()
(in
HeaderInformation
)
conventional_numbering()
(in
FullModelParameters
)
C7_KETOALDONIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
clear_lib()
(in
HPool_RMSD
)
conventional_to_full()
(in
FullModelParameters
)
C7_KETOALDONIC_ACID
(in
VariantType
)
clear_movers()
(in
LoopProtocol
)
ConvergenceCheck
(in
rosetta.protocols.moves.mc_convergence_checks._protocols_moves_mc_convergence_checks_
)
C7_MODIFIED
(in
rosetta
)
clear_movers_and_refiners()
(in
LoopProtocol
)
ConvergenceCheckAP
(in
rosetta.protocols.moves.mc_convergence_checks._protocols_moves_mc_convergence_checks_
)
C7_MODIFIED
(in
rosetta.core.chemical
)
clear_movesets()
(in
RBSegmentRelax
)
ConvergenceCheckCAP
(in
rosetta.protocols.moves.mc_convergence_checks._protocols_moves_mc_convergence_checks_
)
C7_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_mutation_sets()
(in
MutationSetDesignOperation
)
ConvergenceTest
(in
rosetta.core.optimization._core_optimization_
)
C7_MODIFIED
(in
ResidueProperty
)
clear_observers()
(in
Conformation
)
ConvergenceTestAP
(in
rosetta.core.optimization._core_optimization_
)
C7_PHOSPHATE
(in
rosetta
)
clear_other_pose_list()
(in
FullModelInfo
)
ConvergenceTestCAP
(in
rosetta.core.optimization._core_optimization_
)
C7_PHOSPHATE
(in
rosetta.core.chemical
)
clear_overall_prob_set()
(in
ResidueProbDesignOperation
)
convert_acgu_to_1234()
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
C7_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_parameters_list()
(in
ParametersSet
)
convert_angle()
(in
MakeBundle
)
C7_PHOSPHATE
(in
VariantType
)
clear_parameters_list()
(in
BundleParametersSet
)
convert_angle()
(in
PerturbBundle
)
C8_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_parameters_set_list()
(in
Conformation
)
convert_atom_name()
(in
rosetta.core.io.pdb._core_io_pdb_
)
C8_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_parameters_set_list()
(in
SymmetricConformation
)
convert_based_on_match_type()
(in
rosetta.protocols.farna._protocols_farna_
)
C8_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_parameters_set_list()
(in
ProtectedConformation
)
convert_cart_to_spherical_and_round()
(in
NonPlaidFingerprint
)
C8_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_parents()
(in
GeneticAlgorithm
)
convert_cartesian_to_grid()
(in
rosetta.protocols.pockets._protocols_pockets_
)
C8_AMINO_SUGAR
(in
rosetta
)
clear_parents()
(in
GeneticAlgorithmBase
)
convert_cartesian_to_spherical_coor_triplet()
(in
rosetta.protocols.pockets._protocols_pockets_
)
C8_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_perturbers()
(in
KicMover
)
convert_from_std_map()
(in
rosetta.core.pose._core_pose_
)
C8_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_poses()
(in
MonteCarlo
)
convert_GeomSampleInfo_to_FuncOP()
(in
EnzConstraintParameters
)
C8_AMINO_SUGAR
(in
VariantType
)
clear_positions()
(in
ConservativeDesignOperation
)
convert_grid_to_cartesian()
(in
rosetta.protocols.pockets._protocols_pockets_
)
C8_BRANCH_POINT
(in
rosetta
)
clear_prob_set()
(in
ResidueProbDesignOperation
)
convert_inorder_table_to_original_order()
(in
rosetta.core.scoring.trie._core_scoring_trie_
)
C8_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_properties()
(in
AtomType
)
convert_inorder_vector_to_original_order()
(in
rosetta.core.scoring.trie._core_scoring_trie_
)
C8_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_rcgs()
(in
VarLengthBuild
)
convert_matrix_to_xyz()
(in
TMalign
)
C8_BRANCH_POINT
(in
VariantType
)
clear_refiners()
(in
LoopProtocol
)
convert_nucleic_acid_atom_name_to_standard()
(in
rosetta.core.io.pdb._core_io_pdb_
)
C8_DEOXY_SUGAR
(in
rosetta
)
clear_res_list()
(in
FullModelInfo
)
convert_nucleic_acid_atom_names_to_standard()
(in
rosetta.core.io.pdb._core_io_pdb_
)
C8_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_reset_filters()
(in
CombinedFilter
)
convert_nucleic_acid_residue_info_to_standard()
(in
rosetta.core.io.pdb._core_io_pdb_
)
C8_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_reset_filters()
(in
CompoundFilter
)
convert_profile_to_probs()
(in
SequenceProfile
)
C8_DEOXY_SUGAR
(in
VariantType
)
clear_residue_connections()
(in
Residue
)
Convert_rebuild_residue_string_to_list()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
C8_KETOALDONIC_ACID
(in
rosetta
)
clear_reslabel()
(in
PDBInfo
)
convert_res_name()
(in
rosetta.core.io.pdb._core_io_pdb_
)
C8_KETOALDONIC_ACID
(in
rosetta.core.chemical
)
clear_rms()
(in
RmsData
)
convert_residuetype_to_light_graph()
(in
rosetta.core.chemical._core_chemical_
)
C8_KETOALDONIC_ACID
(in
rosetta.core.chemical._core_chemical_
)
clear_rotamer()
(in
MC_Comb
)
convert_scores_to_probabilities()
(in
SeqprofConsensusOperation
)
C8_KETOALDONIC_ACID
(in
VariantType
)
clear_rotamer()
(in
StepWiseSamplerAny
)
convert_spherical_coor_triplet_to_cartesian()
(in
rosetta.protocols.pockets._protocols_pockets_
)
C8_MODIFIED
(in
rosetta
)
clear_rotamer()
(in
StepWiseSamplerComb
)
convert_spherical_list_to_cartesian_list()
(in
NonPlaidFingerprint
)
C8_MODIFIED
(in
rosetta.core.chemical
)
clear_rotamer()
(in
StepWiseSamplerOneValueComb
)
convert_sugar_modeling_to_residue_alternative_set()
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
C8_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_rotamer()
(in
StepWiseSamplerSizedAny
)
convert_to_BondName()
(in
rosetta.core.chemical._core_chemical_
)
C8_MODIFIED
(in
ResidueProperty
)
clear_rotamer()
(in
StepWiseSamplerSizedComb
)
convert_to_ResidueType()
(in
MolFileIOMolecule
)
C8_PHOSPHATE
(in
rosetta
)
clear_rotamer()
(in
ResidueAlternativeStepWiseSamplerComb
)
convert_to_ResidueType()
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
C8_PHOSPHATE
(in
rosetta.core.chemical
)
clear_rotamer()
(in
RigidBodyStepWiseSampler
)
convert_to_rotation_matrix()
(in
EulerAngles
)
C8_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_rotamer()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
convert_to_working_res()
(in
rosetta.protocols.stepwise.legacy.modeler.protein._protocols_stepwise_legacy_modeler_protein_
)
C8_PHOSPHATE
(in
VariantType
)
clear_rotamer()
(in
RigidBodyStepWiseSamplerWithResidueList
)
convert_vector_to_xyz()
(in
TMalign
)
C9_ACETYLAMINO_SUGAR
(in
rosetta
)
clear_rotamer()
(in
RNA_MC_MultiSuite
)
convert_xyz_to_matrix()
(in
TMalign
)
C9_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical
)
clear_rotamer()
(in
RNA_MC_Suite
)
convert_xyz_to_vector()
(in
TMalign
)
C9_ACETYLAMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_rotamer()
(in
RNA_NucleosideStepWiseSampler
)
convert_xyz_v_to_vectors()
(in
TMalign
)
C9_ACETYLAMINO_SUGAR
(in
VariantType
)
clear_rotamer()
(in
RNA_SuiteStepWiseSampler
)
convolute_maps()
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
C9_AMINO_SUGAR
(in
rosetta
)
clear_rots()
(in
BuildPosition
)
coord()
(in
ResidueAtomTreeCollectionMomento
)
C9_AMINO_SUGAR
(in
rosetta.core.chemical
)
clear_score()
(in
MoverStatistics
)
coord()
(in
TargetRotamerCoords
)
C9_AMINO_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_segments()
(in
BackrubMover
)
coord_dev()
(in
AddConstraintsToCurrentConformationMover
)
C9_AMINO_SUGAR
(in
VariantType
)
clear_serial_data()
(in
WorkUnit_LoopHash
)
coord_sdev()
(in
AddSidechainConstraintsToHotspots
)
C9_BRANCH_POINT
(in
rosetta
)
clear_serial_data()
(in
WorkUnit_CombinePose
)
coordinate_constrain_selection()
(in
rosetta.protocols.relax._protocols_relax_
)
C9_BRANCH_POINT
(in
rosetta.core.chemical
)
clear_serial_data()
(in
WorkUnit_FragInsert
)
coordinate_constraint
(in
rosetta
)
C9_BRANCH_POINT
(in
rosetta.core.chemical._core_chemical_
)
clear_serial_data()
(in
WorkUnit_KicCloser
)
coordinate_constraint
(in
ScoreType
)
C9_BRANCH_POINT
(in
VariantType
)
clear_serial_data()
(in
WorkUnit_LoopHash
)
coordinate_constraint
(in
rosetta.core.scoring._core_scoring_
)
C9_DEOXY_SUGAR
(in
rosetta
)
clear_serial_data()
(in
WorkUnit_MD
)
coordinate_constraint
(in
rosetta.core.scoring
)
C9_DEOXY_SUGAR
(in
rosetta.core.chemical
)
clear_serial_data()
(in
WorkUnit_NormalMode
)
coordinate_constraint_energy()
(in
ConstraintEdge
)
C9_DEOXY_SUGAR
(in
rosetta.core.chemical._core_chemical_
)
clear_serial_data()
(in
WorkUnit_PartialAbinitio
)
coordinate_constraint_weight()
(in
IdealizeMover
)
C9_DEOXY_SUGAR
(in
VariantType
)
clear_serial_data()
(in
WorkUnit_RamaPerturber
)
coordinate_fitting
(in
rosetta.numeric
)
C9_MODIFIED
(in
rosetta
)
clear_serial_data()
(in
WorkUnit_Relax
)
coordinate_for_nonchi_atom_in_ideal_frame()
(in
UpstreamResTypeGeometry
)
C9_MODIFIED
(in
rosetta.core.chemical
)
clear_serial_data()
(in
WorkUnit_Sampler
)
coordinate_in_D3_frame()
(in
LigandConformer
)
C9_MODIFIED
(in
rosetta.core.chemical._core_chemical_
)
clear_serial_data()
(in
WorkUnit_bbGauss
)
coordinate_in_global_frame()
(in
LigandConformer
)
C9_MODIFIED
(in
ResidueProperty
)
clear_serial_data()
(in
WorkUnit_BatchRelax
)
CoordinateConstraint
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C9_PHOSPHATE
(in
rosetta
)
clear_serial_data()
(in
WorkUnit_BatchRelax_and_PostRescore
)
CoordinateConstraintAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C9_PHOSPHATE
(in
rosetta.core.chemical
)
clear_serial_data()
(in
DatabaseEntryWorkUnit
)
CoordinateConstraintCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C9_PHOSPHATE
(in
rosetta.core.chemical._core_chemical_
)
clear_serial_data()
(in
WorkUnitBase
)
CoordinateConstraintCreator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C9_PHOSPHATE
(in
VariantType
)
clear_serial_data()
(in
WorkUnit_MoverWrapper
)
CoordinateConstraintCreatorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C_ALA
(in
rosetta.protocols.match
)
clear_serial_data()
(in
WorkUnit_SilentStructStore
)
CoordinateConstraintCreatorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
C_ALA
(in
rosetta.protocols.match._protocols_match_
)
clear_serial_data()
(in
WorkUnit_Wait
)
CoordinateConstraintKC
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
C_ALA
(in
ProbeRadius
)
clear_setup_movers()
(in
VarLengthBuild
)
CoordinateConstraintKCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
c_alpha_index()
(in
DisulfideAtomIndices
)
clear_shared_silent_data()
(in
SilentFileData
)
CoordinateConstraintKCCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
c_anchor()
(in
Rose
)
clear_structure_map()
(in
RawFileData
)
CoordinateCst
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
c_array_mult()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clear_structure_map()
(in
SilentFileData
)
CoordinateCstAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
C_atom_id()
(in
UpstreamResTypeGeometry
)
clear_suckers()
(in
AddCavitiesMover
)
CoordinateCstCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
c_beta_index()
(in
DisulfideAtomIndices
)
clear_task()
(in
DesignRepackMover
)
CoordinateCstCreator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
C_CAR
(in
rosetta.protocols.match
)
clear_task_factory()
(in
SeedSetupMover
)
CoordinateCstCreatorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
C_CAR
(in
rosetta.protocols.match._protocols_match_
)
clear_task_factory()
(in
DesignRepackMover
)
CoordinateCstCreatorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
C_CAR
(in
ProbeRadius
)
clear_title()
(in
HeaderInformation
)
coordinates_from_hit()
(in
DownstreamBuilder
)
C_METHYLAMIDATION
(in
rosetta
)
clear_torsion_string_stack()
(in
BaseTabooPerturber
)
coordinates_from_hit()
(in
LigandConformerBuilder
)
C_METHYLAMIDATION
(in
rosetta.core.chemical
)
clear_torsion_string_stack()
(in
KinematicPerturber
)
coordinates_from_hit()
(in
RigidLigandBuilder
)
C_METHYLAMIDATION
(in
rosetta.core.chemical._core_chemical_
)
clear_torsions_using()
(in
NormalMode
)
coordinates_from_orientation()
(in
LigandConformer
)
C_METHYLAMIDATION
(in
VariantType
)
clear_two_body_energy()
(in
DensePDEdge
)
coordinates_per_fragment()
(in
FragmentSpecification
)
c_mult_ip()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clear_two_body_energy()
(in
DoubleDensePDEdge
)
Coordinates_Tetrahedral_bondedto3atoms_helper()
(in
AssignOrbitals
)
c_n()
(in
ClosureProblem
)
clear_two_body_energy()
(in
FASTEREdge
)
Coordinates_TriganolPlanar_bondedto1atom_helper()
(in
AssignOrbitals
)
c_n_ca()
(in
ClosureProblem
)
clear_two_body_energy()
(in
PDEdge
)
coords()
(in
DecoyStruct
)
C_pi_sp2
(in
rosetta.core.chemical.orbitals
)
clear_two_body_energy()
(in
PrecomputedPairEnergiesEdge
)
coords()
(in
RNA_SilentStruct
)
C_pi_sp2
(in
rosetta.core.chemical.orbitals._core_chemical_orbitals_
)
clear_two_body_energy_for_edge()
(in
PrecomputedPairEnergiesInteractionGraph
)
coords()
(in
MiniPose
)
C_pi_sp2
(in
orbital_type_enum
)
clear_user_provided_movers()
(in
VarLengthBuild
)
coords()
(in
UnrecognizedAtomRecord
)
C_pi_sp2
(in
OrbitalsStatistics
)
clear_Vall()
(in
FragmentLibraryManager
)
coords()
(in
DecoySetEvaluation
)
C_pi_sp2
(in
orbital_type_name
)
ClearConstraintsMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
coords()
(in
KClusterData
)
C_pos()
(in
ProteinBackboneBuildPoint
)
ClearConstraintsMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
coords_vector()
(in
UltraLightResidue
)
CA
(in
rosetta.protocols.frag_picker
)
ClearConstraintsMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
copy()
(in
AnnotatedFragData
)
CA
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
ClearConstraintsMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
copy()
(in
FragData
)
CA
(in
ContactType
)
ClearConstraintsMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
copy()
(in
RotamerDots
)
CA()
(in
BB_Pos
)
ClearConstraintsMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
copy()
(in
PDBInfo
)
CA()
(in
BB_Pos
)
clearMask()
(in
ElectronDensity
)
copy_all_o2prime_torsions()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
CA_atom_id()
(in
UpstreamResTypeGeometry
)
clearPoseExtraScore()
(in
rosetta.core.pose._core_pose_
)
copy_all_o2prime_torsions()
(in
O2PrimePacker
)
ca_c()
(in
ClosureProblem
)
clearPoseExtraScores()
(in
rosetta.core.pose._core_pose_
)
copy_bb_donor_acceptor_arrays()
(in
HBondSet
)
ca_c_n()
(in
ClosureProblem
)
clearSmallPockets()
(in
PocketGrid
)
copy_bulge_res_and_sugar_torsion()
(in
rosetta.protocols.stepwise.modeler.rna.sugar._protocols_stepwise_modeler_rna_sugar_
)
ca_cb_orient()
(in
Sheet
)
ClientMover
(in
rosetta.protocols.environment._protocols_environment_
)
copy_CCD_torsions()
(in
RNA_ChainClosureChecker
)
ca_cb_orients()
(in
Sheet
)
ClientMoverAP
(in
rosetta.protocols.environment._protocols_environment_
)
copy_CCD_torsions_general()
(in
RNA_ChainClosureChecker
)
Ca_coords()
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
ClientMoverCAP
(in
rosetta.protocols.environment._protocols_environment_
)
copy_comments()
(in
RelativePoseFilter
)
ca_cprev_n_h_interres_torsion_params()
(in
ResidueCartBondedParameters
)
clone()
(in
MetricValueBase
)
copy_connectivity()
(in
Graph
)
CA_DME_EVALUATION
(in
rosetta.basic
)
clone()
(in
CacheableData
)
COPY_COORDS
(in
rosetta.basic
)
CA_DME_EVALUATION
(in
rosetta.basic._basic_
)
clone()
(in
CacheableString
)
COPY_COORDS
(in
rosetta.basic._basic_
)
CA_DME_EVALUATION
(in
ProfTag
)
clone()
(in
CacheableStringFloatMap
)
COPY_COORDS
(in
ProfTag
)
CA_gdtmm()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
CacheableStringMap
)
copy_coords()
(in
AtomTree
)
CA_gdttm()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
DiagnosticData
)
copy_coords()
(in
Atom
)
CA_maxsub()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
WriteableCacheableData
)
copy_coords()
(in
BondedAtom
)
ca_nnext_c_o_interres_torsion_params()
(in
ResidueCartBondedParameters
)
clone()
(in
WriteableCacheableMap
)
copy_coords()
(in
JumpAtom
)
CA_only()
(in
AddConstraintsToCurrentConformationMover
)
Clone()
(in
Element
)
copy_coords()
(in
ResidueAtomTreeCollectionMomento
)
CA_pos()
(in
ProteinBackboneBuildPoint
)
clone()
(in
ResidueType
)
copy_data()
(in
EllipsoidalRandomizationMover
)
CA_rmsd()
(in
BinarySilentStruct
)
Clone()
(in
GasteigerAtomTypeData
)
copy_dna_chains()
(in
DnaInterfaceMultiStateDesign
)
CA_rmsd()
(in
RNA_SilentStruct
)
clone()
(in
Conformation
)
copy_dna_chains()
(in
RestrictDesignToProteinDNAInterface
)
CA_rmsd()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
Residue
)
COPY_DOF
(in
rosetta.protocols.stepwise.sampler
)
CA_RMSD_EVALUATION
(in
rosetta.basic
)
clone()
(in
Parameters
)
COPY_DOF
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
CA_RMSD_EVALUATION
(in
rosetta.basic._basic_
)
clone()
(in
ParametersSet
)
COPY_DOF
(in
StepWiseSamplerType
)
CA_RMSD_EVALUATION
(in
ProfTag
)
clone()
(in
SymmData
)
copy_dofs
(in
rosetta.protocols.stepwise.sampler
)
CA_rmsd_symmetric()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
SymmetricConformation
)
copy_dofs()
(in
rosetta.core.pose.copydofs._core_pose_copydofs_
)
CA_search_scores_and_tensors()
(in
PcsEnergy
)
clone()
(in
SymmetryInfo
)
copy_dofs_from_pose()
(in
CartesianMinimizerMap
)
CA_search_scores_and_tensors_with_svd()
(in
PcsEnergy
)
clone()
(in
AnnotatedFragData
)
copy_dofs_from_pose()
(in
MinimizerMap
)
CA_Sscore()
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
clone()
(in
BBTorsionAndAnglesSRFD
)
copy_dofs_from_pose()
(in
SymMinimizerMap
)
CA_superimpose()
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
clone()
(in
BBTorsionSRFD
)
copy_dofs_info()
(in
CopyDofs
)
CaCbCb_Angle_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
BaseCacheUnit
)
copy_dofs_match_atom_names()
(in
rosetta.core.pose.copydofs._core_pose_copydofs_
)
CaCbCb_Angle_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
ConstantLengthFragSet
)
copy_dofs_rotamer()
(in
RigidBodyStepWiseSamplerWithResidueList
)
CaCbCb_Angle_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
DownJumpSRFD
)
copy_dofs_sort_criterion()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
CaCbCbCa_Dihedral_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FragData
)
copy_dofs_to_pose()
(in
CartesianMinimizerMap
)
CaCbCbCa_Dihedral_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FragSet
)
copy_dofs_to_pose()
(in
MinimizerMap
)
CaCbCbCa_Dihedral_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FragSetCollection
)
copy_dofs_to_pose()
(in
SymMinimizerMap
)
cache()
(in
Frame
)
clone()
(in
Frame
)
copy_fragments()
(in
FragLib
)
cache_fragments()
(in
VarLengthBuild
)
clone()
(in
IndependentBBTorsionSRFD
)
copy_fragments()
(in
SingleResidueTorsionFragmentLibrary
)
cache_limit()
(in
TrajectoryRecorder
)
clone()
(in
JumpingFrame
)
copy_fragments()
(in
TorsionFragmentLibrary
)
cache_pose()
(in
VallProvider
)
clone()
(in
NonContinuousFrame
)
copy_from()
(in
Edge
)
cache_profile()
(in
VallProvider
)
clone()
(in
OrderedFragSet
)
copy_from()
(in
Node
)
cache_task()
(in
RandomMutation
)
clone()
(in
SecstructSRFD
)
copy_from()
(in
SimpleEdge
)
CacheableAtomID_MapVector
(in
rosetta.core.id._core_id_
)
clone()
(in
SingleResidueFragData
)
copy_from()
(in
SimpleNode
)
CacheableAtomID_MapVectorAP
(in
rosetta.core.id._core_id_
)
clone()
(in
UpJumpSRFD
)
copy_from()
(in
EnergyEdge
)
CacheableAtomID_MapVectorCAP
(in
rosetta.core.id._core_id_
)
clone()
(in
ABEGOEval
)
copy_from()
(in
EnergyNode
)
CacheableData
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
EnergyEval
)
copy_from()
(in
MinimizationEdge
)
CacheableDataAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
IdentityEval
)
copy_from()
(in
MinimizationNode
)
CacheableDataCAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
VallFragmentEval
)
copy_from()
(in
TenANeighborEdge
)
CacheableDataType
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
LengthGen
)
copy_from()
(in
TenANeighborNode
)
CacheableDataTypeAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
SecStructGen
)
copy_from()
(in
TwelveANeighborEdge
)
CacheableDataTypeCAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
VallFragmentGen
)
copy_from()
(in
TwelveANeighborNode
)
CacheableObserver
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
CacheableAtomID_MapVector
)
copy_from()
(in
ConstraintEdge
)
CacheableObserverAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
PDBSilentStruct
)
copy_from()
(in
ConstraintNode
)
CacheableObserverCAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
BinarySilentStruct
)
copy_from_ref()
(in
PCS_tensor
)
CacheableObserverType
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
RNA_SilentStruct
)
copy_from_ref()
(in
PCS_tensor_Ts1
)
CacheableObserverTypeAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
RigidBodySilentStruct
)
copy_from_ref()
(in
PCS_tensor_Ts2
)
CacheableObserverTypeCAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
ScoreFileSilentStruct
)
copy_from_ref()
(in
PCS_tensor_Ts3
)
CacheablePoseRawPtr
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
ScoreJumpFileSilentStruct
)
copy_from_ref()
(in
PCS_tensor_Ts4
)
CacheablePoseRawPtrAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
SilentStruct
)
copy_helix_bondangles()
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
CacheablePoseRawPtrCAP
(in
rosetta.core.pose.datacache._core_pose_datacache_
)
clone()
(in
FoldTree
)
copy_helix_bondlengths()
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
CacheableString
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
MoveMap
)
copy_helix_dihedrals()
(in
rosetta.protocols.helical_bundle._protocols_helical_bundle_
)
CacheableStringAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
Atom
)
copy_hit()
(in
downstream_hit
)
CacheableStringCAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
BondedAtom
)
copy_hit()
(in
upstream_hit
)
CacheableStringFloatMap
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
JumpAtom
)
copy_i_bins_to_iplus1()
(in
BinTransitionData
)
CacheableStringFloatMapAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
MinimizerOptions
)
copy_interface()
(in
RestrictDesignToProteinDNAInterface
)
CacheableStringFloatMapCAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
DunbrackConstraint
)
copy_leaf_ids()
(in
ClusteringTreeNode
)
CacheableStringMap
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
DunbrackEnergy
)
copy_loop_pose_to_original()
(in
rosetta.protocols.generalized_kinematic_closure._protocols_generalized_kinematic_closure_
)
CacheableStringMapAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
RotamerConstraint
)
copy_member_ids()
(in
ClusteringTreeNode
)
CacheableStringMapCAP
(in
rosetta.basic.datacache._basic_datacache_
)
clone()
(in
CenRotDunEnergy
)
copy_next_pose_segment()
(in
InputStreamWithResidueInfo
)
cached_score()
(in
ABEGO_SS_Score
)
clone()
(in
HPatchEnergy
)
copy_opts_swapped()
(in
ResPairMotifQuery
)
cached_score()
(in
AmbigCSScore
)
clone()
(in
SurfaceEnergy
)
copy_over_phosphate_variants()
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
cached_score()
(in
AtomBasedConstraintsScore
)
clone()
(in
AddResiduesRotamerSetOperation
)
copy_pdbinfo()
(in
GraftMoverBase
)
cached_score()
(in
AtomPairConstraintsScore
)
clone()
(in
RotamerSetOperation
)
copy_phosphates()
(in
MultiPhosphateSampler
)
cached_score()
(in
CSScore
)
clone()
(in
UnboundRotamersOperation
)
copy_pose_crd()
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
cached_score()
(in
CachingScoringMethod
)
clone()
(in
WaterPackingInfo
)
copy_residue_connections()
(in
Residue
)
cached_score()
(in
DihedralConstraintsScore
)
clone()
(in
ALLAA
)
copy_residue_connections_from()
(in
Residue
)
cached_score()
(in
DisulfideDistance
)
clone()
(in
ALLAAwc
)
copy_residue_coordinates_and_rebuild_missing_atoms()
(in
rosetta.core.conformation._core_conformation_
)
cached_score()
(in
FragmentCrmsd
)
clone()
(in
ALLAAxc
)
copy_scores()
(in
SilentStruct
)
cached_score()
(in
FragmentCrmsdResDepth
)
clone()
(in
APOLA
)
copy_segment()
(in
Conformation
)
cached_score()
(in
FragmentDME
)
clone()
(in
APOLAR
)
copy_segment()
(in
Pose
)
cached_score()
(in
GunnCostScore
)
clone()
(in
AUTO
)
copy_sidechains()
(in
LoopRelaxMover
)
cached_score()
(in
HydrophobicityProfileSimilarity
)
clone()
(in
EMPTY
)
copy_stretch()
(in
RelativePoseFilter
)
cached_score()
(in
HydrophobicitySimilarity
)
clone()
(in
EX
)
copy_targeted_dna()
(in
DnaInterfaceMultiStateDesign
)
cached_score()
(in
InterbondAngleScore
)
clone()
(in
EX_CUTOFF
)
copy_targeted_dna()
(in
RestrictDesignToProteinDNAInterface
)
cached_score()
(in
JCoupling
)
clone()
(in
FIX_HIS_TAUTOMER
)
copy_values()
(in
RNA_RawBaseBaseInfo
)
cached_score()
(in
LAMBEGO_Similarity
)
clone()
(in
NATAA
)
copy_without_output()
(in
Job
)
cached_score()
(in
MidPhiOut
)
clone()
(in
NATRO
)
CopyDofMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
cached_score()
(in
MidPsiOut
)
clone()
(in
NC
)
CopyDofMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
cached_score()
(in
PCS_FragDistance
)
clone()
(in
NOTAA
)
CopyDofMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
cached_score()
(in
PartialSecondarySimilarity
)
clone()
(in
NO_ADDUCTS
)
copydofs
(in
rosetta.core.pose
)
cached_score()
(in
Phi
)
clone()
(in
PIKAA
)
CopyDofs
(in
rosetta.core.pose.copydofs._core_pose_copydofs_
)
cached_score()
(in
PhiPsiRmsd
)
clone()
(in
PIKNA
)
CopyDofsAP
(in
rosetta.core.pose.copydofs._core_pose_copydofs_
)
cached_score()
(in
PhiPsiSquareWell
)
clone()
(in
PIKRNA
)
CopyDofsCAP
(in
rosetta.core.pose.copydofs._core_pose_copydofs_
)
cached_score()
(in
ProfileScore
)
clone()
(in
POLAR
)
CopyDofStepWiseSampler
(in
rosetta.protocols.stepwise.sampler.copy_dofs._protocols_stepwise_sampler_copy_dofs_
)
cached_score()
(in
ProfileScoreBlosum62
)
clone()
(in
PackerTask
)
CopyDofStepWiseSamplerAP
(in
rosetta.protocols.stepwise.sampler.copy_dofs._protocols_stepwise_sampler_copy_dofs_
)
cached_score()
(in
ProfileScoreDistWeight
)
clone()
(in
PackerTask_
)
CopyDofStepWiseSamplerCAP
(in
rosetta.protocols.stepwise.sampler.copy_dofs._protocols_stepwise_sampler_copy_dofs_
)
cached_score()
(in
ProfileScoreL1
)
clone()
(in
RESET
)
copysign()
(in
rosetta.utility._utility_
)
cached_score()
(in
ProfileScoreStructL1
)
clone()
(in
ResfileCommand
)
CORdata
(in
rosetta.protocols.sparta._protocols_sparta_
)
cached_score()
(in
ProfileScoreSubMatrix
)
clone()
(in
SCAN
)
CORdataAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
cached_score()
(in
Psi
)
clone()
(in
TARGET
)
CORdataCAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
cached_score()
(in
RDCScore
)
clone()
(in
TaskFactory
)
core
(in
rosetta
)
cached_score()
(in
RamaScore
)
clone()
(in
USE_INPUT_SC
)
CoreDunbrackFilter
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
cached_score()
(in
ScoreEValuator
)
clone()
(in
AddBehaviorRLT
)
CoreDunbrackFilterAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
cached_score()
(in
SecondarySimilarity
)
clone()
(in
AllResFilter
)
CoreDunbrackFilterCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
cached_score()
(in
SolventAccessibility
)
clone()
(in
AnyResFilter
)
CoreDunbrackFilterCreator
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
cached_score()
(in
TalosSSSimilarity
)
clone()
(in
AppendResidueRotamerSet
)
CoreDunbrackFilterCreatorAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
cached_score()
(in
TorsionBinSimilarity
)
clone()
(in
AppendRotamer
)
CoreDunbrackFilterCreatorCAP
(in
rosetta.protocols.fldsgn.filters._protocols_fldsgn_filters_
)
CachingScoringMethod
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
clone()
(in
AppendRotamerSet
)
corners()
(in
Bool3DGrid
)
CachingScoringMethodAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
clone()
(in
ChainIs
)
corrcoef()
(in
rosetta.numeric.statistics._numeric_statistics_
)
CachingScoringMethodCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
clone()
(in
ChainIsnt
)
corrcoef_with_provided_mean_and_std_dev()
(in
rosetta.numeric.statistics._numeric_statistics_
)
CAcstGenerator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
clone()
(in
DisallowIfNonnative
)
correct_arrays_for_symmetry()
(in
SymmetricScoreFunction
)
CAcstGeneratorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
clone()
(in
DisallowIfNonnativeRLT
)
correct_finalize_score()
(in
SymmetricScoreFunction
)
CAcstGeneratorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
clone()
(in
ExtraChiCutoff
)
correctly_add_cutpoint_variants()
(in
rosetta.core.pose._core_pose_
)
CAcstGeneratorCreator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
clone()
(in
ExtraRotamers
)
correctly_position_cutpoint_phosphate_torsions()
(in
rosetta.core.pose.rna._core_pose_rna_
)
CAcstGeneratorCreatorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
clone()
(in
ExtraRotamersGeneric
)
correctly_position_five_prime_phosphate()
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
CAcstGeneratorCreatorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
clone()
(in
IncludeCurrent
)
correspondence()
(in
PackDaemon
)
cal_delta_internal_coordinates()
(in
CentroidRotamerSampleData
)
clone()
(in
InitializeExtraRotsFromCommandline
)
corresponding_res_block()
(in
EnzCstTemplateRes
)
cal_delta_internal_coordinates_squared()
(in
CentroidRotamerSampleData
)
clone()
(in
InitializeFromCommandline
)
cosAHD_fade_lookup()
(in
HBondDatabase
)
cal_dis_angle_to_find_sheet()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
NoRepackDisulfides
)
cosAHD_long_poly_lookup()
(in
HBondDatabase
)
cal_distance()
(in
CentroidRotamerSampleData
)
clone()
(in
NoResFilter
)
cosAHD_short_poly_lookup()
(in
HBondDatabase
)
cal_distance()
(in
SmallMol
)
clone()
(in
OperateOnCertainResidues
)
cosBAH_fade_lookup()
(in
HBondDatabase
)
cal_distance_squared()
(in
CentroidRotamerSampleData
)
clone()
(in
OperateOnResidueSubset
)
cosBAH_long_poly_lookup()
(in
HBondDatabase
)
cal_min_avg_dis_between_sheets_by_cen_res()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
OptCysHG
)
cosBAH_short_poly_lookup()
(in
HBondDatabase
)
cal_min_avg_dis_between_two_sheets_by_cen_res()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
OptH
)
COSFXN()
(in
rosetta.numeric.crick_equations._numeric_crick_equations_
)
cal_min_dis_between_sheets_by_all_res()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PreserveCBeta
)
could_be_accepted()
(in
ABEGO_SS_Pool
)
cal_min_dis_between_two_sheets_by_all_res()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PreventRepacking
)
could_be_accepted()
(in
QuotaPool
)
cal_min_dist()
(in
SmallMol
)
clone()
(in
PreventRepackingRLT
)
could_be_accepted()
(in
SecondaryStructurePool
)
cal_num_of_sheets_that_surround_this_sheet()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
ReadResfile
)
could_not_create_resource_error_message()
(in
FallbackConfiguration
)
cal_shortest_dis_between_facing_aro_in_sw()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
ReadResfileAndObeyLengthEvents
)
could_not_create_resource_error_message()
(in
NativeFallbackConfiguration
)
Calc()
(in
MolecularSurfaceCalculator
)
clone()
(in
ReplicateTask
)
could_not_create_resource_error_message()
(in
LoopsFileFallbackConfiguration
)
Calc()
(in
ShapeComplementarityCalculator
)
clone()
(in
ResFilter
)
could_not_create_resource_error_message()
(in
SurfaceVectorFallbackConfiguration
)
calc_all_averages()
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
clone()
(in
ResFilterComposition
)
CouldHaveHybridization()
(in
PossibleAtomTypesForAtom
)
calc_all_dist()
(in
MakeRotLibMover
)
clone()
(in
ResLvlTaskOperation
)
coulomb
(in
rosetta.core.scoring.etable
)
calc_all_dist()
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
ResidueHasProperty
)
Coulomb
(in
rosetta.core.scoring.etable.coulomb._core_scoring_etable_coulomb_
)
calc_atom_masks()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
ResidueIndexIs
)
CoulombAP
(in
rosetta.core.scoring.etable.coulomb._core_scoring_etable_coulomb_
)
calc_atom_masks()
(in
LeGrandSasa
)
clone()
(in
ResidueIndexIsnt
)
CoulombCAP
(in
rosetta.core.scoring.etable.coulomb._core_scoring_etable_coulomb_
)
calc_CA_Irmsd()
(in
rosetta.protocols.docking._protocols_docking_
)
clone()
(in
ResidueLacksProperty
)
count()
(in
AtomTreeDiff
)
calc_centroids()
(in
MakeRotLibMover
)
clone()
(in
ResidueName3Is
)
count()
(in
CountPairAll
)
calc_centroids()
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
ResidueName3Isnt
)
count()
(in
CountPairFunction
)
calc_crossing_angles()
(in
HelixBundleFeatures
)
clone()
(in
ResiduePDBIndexIs
)
count()
(in
CountPairGeneric
)
calc_delta_sasa()
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
clone()
(in
ResiduePDBIndexIsnt
)
count()
(in
CountPairNone
)
calc_dist()
(in
MakeRotLibMover
)
clone()
(in
ResiduePDBInfoHasLabel
)
count()
(in
ResPairMotif
)
calc_dist()
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
ResiduePDBInfoLacksLabel
)
count()
(in
CompositeScoringScheme
)
calc_ElectricField()
(in
PDB
)
clone()
(in
ResidueTypeFilter
)
count()
(in
RmsData
)
calc_fa_energy()
(in
HelixBundleFeatures
)
clone()
(in
RestrictAbsentCanonicalAAS
)
count()
(in
StepWiseScreener
)
calc_final_rotamer_probs()
(in
MakeRotLibMover
)
clone()
(in
RestrictAbsentCanonicalAASRLT
)
count_AA_w_direction()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
calc_final_rotamers()
(in
MakeRotLibMover
)
clone()
(in
RestrictResidueToRepacking
)
count_AA_wo_direction()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
calc_Fnat()
(in
rosetta.protocols.docking._protocols_docking_
)
clone()
(in
RestrictToRepacking
)
count_accepted()
(in
MultiTemperatureTrialCounter
)
calc_Fnonnat()
(in
rosetta.protocols.docking._protocols_docking_
)
clone()
(in
RestrictToRepackingRLT
)
count_accepted()
(in
TrialCounter
)
calc_frac_native_contacts()
(in
FlexPepDockingPoseMetrics
)
clone()
(in
RestrictYSDesign
)
count_at_path_distance()
(in
CountPairCrossover3
)
calc_gdt()
(in
Align_RmsdEvaluator
)
clone()
(in
RotamerExplosion
)
count_at_path_distance()
(in
CountPairCrossover4
)
calc_geometry()
(in
BetaAlphaBetaMotif
)
clone()
(in
SetRotamerCouplings
)
count_bb_atoms()
(in
KinematicMover
)
calc_geometry()
(in
BetaAlphaBetaMotifSet
)
clone()
(in
SetRotamerLinks
)
count_bb_atoms_in_residue()
(in
KinematicMover
)
calc_geometry()
(in
HSSTriplet
)
clone()
(in
TaskOperation
)
count_candidates()
(in
BoundedCollector_T_protocols_frag_picker_CompareTotalScore_T
)
calc_geometry()
(in
Helix
)
clone()
(in
Pose
)
count_candidates()
(in
CandidatesCollector
)
calc_geometry()
(in
HelixPairing
)
clone()
(in
CacheableObserver
)
count_candidates()
(in
GrabAllCollector
)
calc_geometry()
(in
HelixPairingSet
)
clone()
(in
CacheablePoseRawPtr
)
count_candidates()
(in
ABEGO_SS_Pool
)
calc_geometry()
(in
Sheet
)
clone()
(in
LengthEventCollector
)
count_candidates()
(in
QuotaCollector
)
calc_geometry()
(in
SheetSet
)
clone()
(in
PositionConservedResiduesStore
)
count_candidates()
(in
QuotaPool
)
calc_geometry()
(in
Strand
)
clone()
(in
SpecialSegmentsObserver
)
count_candidates()
(in
SecondaryStructurePool
)
calc_HN_S2()
(in
PDB
)
clone()
(in
FullModelInfo
)
count_CBs()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
calc_inout()
(in
BetaAlphaBetaMotif
)
clone()
(in
FullModelParameters
)
count_clashes_between_two_poses()
(in
MotifGraftMover
)
calc_interacting_vector()
(in
rosetta.core.pack.task.operation.util._core_pack_task_operation_util_
)
clone()
(in
PoseMetricCalculator
)
count_components()
(in
FragmentScoreManager
)
calc_interaction_energy()
(in
rosetta.protocols.docking._protocols_docking_
)
clone()
(in
InterfaceDefinitionCalculator
)
count_connected_components_and_initialize_vertex_groups()
(in
InteractionGraphBase
)
calc_interaction_energy()
(in
SymDockProtocol
)
clone()
(in
InterfaceDeltaEnergeticsCalculator
)
count_cutpoints()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
calc_interface_metrics()
(in
FlexPepDockingPoseMetrics
)
clone()
(in
InterfaceNeighborDefinitionCalculator
)
count_data()
(in
RNA_AtrRepChecker
)
calc_interface_vector()
(in
rosetta.core.pack.task.operation.util._core_pack_task_operation_util_
)
clone()
(in
InterfaceSasaDefinitionCalculator
)
count_dynamic_memory()
(in
Edge
)
calc_Irmsd()
(in
rosetta.protocols.docking._protocols_docking_
)
clone()
(in
SasaCalculator2
)
count_dynamic_memory()
(in
Node
)
calc_kl_divergence()
(in
MixtureFunc
)
clone()
(in
SasaCalculatorLegacy
)
count_dynamic_memory()
(in
DensePDEdge
)
calc_Lrmsd()
(in
rosetta.protocols.docking._protocols_docking_
)
clone()
(in
CenListInfo
)
count_dynamic_memory()
(in
DensePDInteractionGraph
)
calc_pc_and_com()
(in
HelixBundleFeatures
)
clone()
(in
ChemicalShiftAnisotropy
)
count_dynamic_memory()
(in
DensePDNode
)
calc_penalty_vec()
(in
FabConstraint
)
clone()
(in
ContextGraph
)
count_dynamic_memory()
(in
DoubleDensePDEdge
)
calc_pep_scores()
(in
FlexPepDockingPoseMetrics
)
clone()
(in
DenseEnergyContainer
)
count_dynamic_memory()
(in
DoubleDensePDInteractionGraph
)
calc_per_atom_sasa()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
DipolarCoupling
)
count_dynamic_memory()
(in
DoubleDensePDNode
)
calc_per_atom_sasa_sc()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
DockingScoreFunction
)
count_dynamic_memory()
(in
DoubleLazyEdge
)
calc_per_res_hydrophobic_sasa()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
Energies
)
count_dynamic_memory()
(in
DoubleLazyInteractionGraph
)
calc_per_residue_scores()
(in
rosetta.protocols.sparta._protocols_sparta_
)
clone()
(in
GenBornPoseInfo
)
count_dynamic_memory()
(in
DoubleLazyNode
)
calc_pfront_poses_filter_ranks()
(in
GreedyOptMutationMover
)
clone()
(in
GenBornResidueInfo
)
count_dynamic_memory()
(in
EdgeBase
)
calc_pfront_poses_filter_ranks()
(in
MatDesGreedyOptMutationMover
)
clone()
(in
GenBornRotamerSetInfo
)
count_dynamic_memory()
(in
FASTEREdge
)
calc_phipsi_RMSD()
(in
FlexPepDockingPoseMetrics
)
clone()
(in
LREnergyContainer
)
count_dynamic_memory()
(in
FASTERInteractionGraph
)
calc_point_mut_filters()
(in
PointMutationCalculator
)
clone()
(in
MembraneEmbed
)
count_dynamic_memory()
(in
FASTERNode
)
calc_point_mut_filters()
(in
MatDesPointMutationCalculator
)
clone()
(in
MembraneTopology
)
count_dynamic_memory()
(in
FixedBBEdge
)
calc_quadratic()
(in
rosetta.basic._basic_
)
clone()
(in
Membrane_FAEmbed
)
count_dynamic_memory()
(in
LazyEdge
)
calc_res_contact()
(in
rosetta.protocols.docking._protocols_docking_
)
clone()
(in
MinScoreScoreFunction
)
count_dynamic_memory()
(in
LazyInteractionGraph
)
CALC_RMS
(in
rosetta.core.pose.full_model_info
)
clone()
(in
NeighborList
)
count_dynamic_memory()
(in
LazyNode
)
CALC_RMS
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
clone()
(in
OneToAllEnergyContainer
)
count_dynamic_memory()
(in
LinearMemEdge
)
CALC_RMS
(in
FullModelParameterType
)
clone()
(in
PeptideBondedEnergyContainer
)
count_dynamic_memory()
(in
LinearMemNode
)
calc_rms()
(in
rosetta.numeric.model_quality._numeric_model_quality_
)
clone()
(in
ResidualDipolarCoupling
)
count_dynamic_memory()
(in
LinearMemoryInteractionGraph
)
calc_rms()
(in
SymDockProtocol
)
clone()
(in
ResidualDipolarCoupling_Rohl
)
count_dynamic_memory()
(in
NodeBase
)
calc_rms_fast()
(in
rosetta.numeric.model_quality._numeric_model_quality_
)
clone()
(in
ResidueNblistData
)
count_dynamic_memory()
(in
OnTheFlyEdge
)
calc_rms_res()
(in
FullModelInfo
)
clone()
(in
ResiduePairNeighborList
)
count_dynamic_memory()
(in
OnTheFlyInteractionGraph
)
calc_rms_res()
(in
StepWiseBasicWorkingParameters
)
clone()
(in
SS_Info
)
count_dynamic_memory()
(in
OnTheFlyNode
)
calc_rotamer_clusters()
(in
MakeRotLibMover
)
clone()
(in
SS_Killhairpins_Info
)
count_dynamic_memory()
(in
PDEdge
)
calc_rotamer_clusters()
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
ScoreFunction
)
count_dynamic_memory()
(in
PDInteractionGraph
)
calc_rsd_sasa()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
clone()
(in
TenANeighborGraph
)
count_dynamic_memory()
(in
PDNode
)
calc_running_avg()
(in
MakeRotLibMover
)
clone()
(in
TwelveANeighborGraph
)
count_dynamic_memory()
(in
PrecomputedPairEnergiesEdge
)
calc_sasa_bothsides()
(in
Sheet
)
clone()
(in
BinTransitionCalculator
)
count_dynamic_memory()
(in
SimpleEdge
)
calc_standard_deviations()
(in
MakeRotLibMover
)
clone()
(in
BinTransitionData
)
count_dynamic_memory()
(in
SimpleInteractionGraph
)
calc_std_dev()
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
CarbonHBondEnergy
)
count_dynamic_memory()
(in
SimpleNode
)
calc_strand_pairing_set()
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
clone()
(in
AmbiguousConstraint
)
count_dynamic_memory()
(in
SymmLinearMemEdge
)
calc_total_sasa()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
AmbiguousNMRConstraint
)
count_dynamic_memory()
(in
SymmLinearMemNode
)
calc_vector_boltzmann()
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
clone()
(in
AmbiguousNMRDistanceConstraint
)
count_dynamic_memory()
(in
SymmLinearMemoryInteractionGraph
)
calc_vector_mean()
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
clone()
(in
AngleConstraint
)
count_dynamic_memory()
(in
SymmMinimalistEdge
)
calc_vector_median()
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
clone()
(in
AtomPairConstraint
)
count_dynamic_memory()
(in
SymmMinimalistInteractionGraph
)
calc_vector_mode()
(in
rosetta.protocols.unfolded_state_energy_calculator._protocols_unfolded_state_energy_calculator_
)
clone()
(in
BackboneStubConstraint
)
count_dynamic_memory()
(in
SymmMinimalistNode
)
calcLevel1()
(in
ANN
)
clone()
(in
BackboneStubLinearConstraint
)
count_dynamic_memory()
(in
SymmOnTheFlyEdge
)
calcLevel2()
(in
ANN
)
clone()
(in
BigBinConstraint
)
count_dynamic_memory()
(in
SymmOnTheFlyInteractionGraph
)
calcPlane()
(in
PDB
)
clone()
(in
BoundFunc
)
count_dynamic_memory()
(in
SymmOnTheFlyNode
)
calcRhoC()
(in
ElectronDensity
)
clone()
(in
ConstantConstraint
)
count_dynamic_memory()
(in
EnergyEdge
)
CalcSc()
(in
ShapeComplementarityCalculator
)
clone()
(in
Constraint
)
count_dynamic_memory()
(in
EnergyNode
)
calcSurface()
(in
PDB
)
clone()
(in
ConstraintSet
)
count_dynamic_memory()
(in
MinimizationEdge
)
calcTriangles()
(in
PDB
)
clone()
(in
Constraints
)
count_dynamic_memory()
(in
MinimizationNode
)
calculate()
(in
LeGrandSasa
)
clone()
(in
ConstraintsEnergy
)
count_dynamic_memory()
(in
TenANeighborEdge
)
calculate()
(in
SasaCalc
)
clone()
(in
CoordinateConstraint
)
count_dynamic_memory()
(in
TenANeighborNode
)
calculate()
(in
SasaMethod
)
clone()
(in
CstEnergyContainer
)
count_dynamic_memory()
(in
TwelveANeighborEdge
)
calculate()
(in
DNAParameters
)
clone()
(in
CstMinimizationData
)
count_dynamic_memory()
(in
TwelveANeighborNode
)
calculate()
(in
NPDPropCalculator
)
clone()
(in
DihedralConstraint
)
count_dynamic_memory()
(in
ConstraintEdge
)
calculate()
(in
ReportPSSMDifferences
)
clone()
(in
DihedralPairConstraint
)
count_dynamic_memory()
(in
ConstraintNode
)
calculate()
(in
ReportSequenceDifferences
)
clone()
(in
DistancePairConstraint
)
count_dynamic_memory()
(in
FlexbbEdge
)
calculate()
(in
Interface
)
clone()
(in
FabConstraint
)
count_dynamic_memory()
(in
FlexbbInteractionGraph
)
calculate()
(in
InterfaceInfo
)
clone()
(in
KofNConstraint
)
count_dynamic_memory()
(in
FlexbbNode
)
calculate()
(in
DdGScan
)
clone()
(in
LocalCoordinateConstraint
)
count_dynamic_memory()
(in
MinimalistFlexbbEdge
)
calculate()
(in
ddG
)
clone()
(in
MultiConstraint
)
count_dynamic_memory()
(in
MinimalistFlexbbNode
)
calculate_atom_id_domain_map()
(in
AllowInsert
)
clone()
(in
NamedAngleConstraint
)
count_dynamic_memory()
(in
OTFFlexbbEdge
)
calculate_atom_id_map()
(in
AllowInsert
)
clone()
(in
NamedAtomPairConstraint
)
count_dynamic_memory()
(in
OTFFlexbbInteractionGraph
)
calculate_auc()
(in
RocCurve
)
clone()
(in
NonResidueTypeConstraint
)
count_dynamic_memory()
(in
OTFFlexbbNode
)
calculate_axes()
(in
EllipsoidalRandomizationMover
)
clone()
(in
OffsetPeriodicBoundFunc
)
count_energy_drop()
(in
MultiTemperatureTrialCounter
)
calculate_center_xyz()
(in
EggshellGrid
)
clone()
(in
PeriodicBoundFunc
)
count_energy_drop()
(in
TrialCounter
)
calculate_chi2_free()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clone()
(in
ResidueTypeConstraint
)
count_energy_to_node_in_my_fragtotalE()
(in
FlexbbNode
)
calculate_chi_k()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clone()
(in
ResidueTypeLinkingConstraint
)
count_ff()
(in
FormFactorManager
)
calculate_contact_order()
(in
ContactOrderEnergy
)
clone()
(in
SequenceProfileConstraint
)
count_fixed_residues()
(in
FoldTree
)
calculate_cost_only_with_svd()
(in
PcsDataLanthanide
)
clone()
(in
SiteConstraint
)
count_linkers()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
calculate_dihedral_distance()
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
SiteConstraintResidues
)
count_motifs()
(in
MotifHash
)
calculate_dihedral_w_4_resnums()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
XtalMLEnergy
)
count_n_matches()
(in
MatchCounter
)
calculate_distance_matrix()
(in
ClusterBase
)
clone()
(in
DistanceFunc
)
count_num_covered()
(in
DotSphere
)
calculate_energy()
(in
RNA_ChemicalMappingEnergy
)
clone()
(in
FullatomCustomPairDistanceEnergy
)
count_pair
(in
rosetta.core.scoring.etable
)
calculate_geometry()
(in
EllipsoidalRandomizationMover
)
clone()
(in
CBSG_Dihedral_Func
)
count_pools()
(in
QuotaCollector
)
calculate_helical_parameters()
(in
RepeatParameterFilter
)
clone()
(in
CB_Angle_Func
)
count_pools()
(in
QuotaConfig
)
calculate_helical_parameters_helper()
(in
RepeatParameterFilter
)
clone()
(in
CaCbCbCa_Dihedral_Func
)
count_query_ss()
(in
FragmentPicker
)
calculate_highres_ref_energy()
(in
DockingEnsemble
)
clone()
(in
CaCbCb_Angle_Func
)
count_rotamer_as_native()
(in
PNatRotOptEPositionData
)
calculate_I_of_E()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clone()
(in
Cb_Distance_Func
)
count_scoring_atoms()
(in
SAXSEnergy
)
calculate_interface_score()
(in
PeptideDeriverFilter
)
clone()
(in
Cen_Distance_Func
)
count_static_memory()
(in
Edge
)
calculate_interres()
(in
AnalyticEtableEnergy
)
clone()
(in
CentroidDisulfideEnergy
)
count_static_memory()
(in
Node
)
calculate_interres()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
clone()
(in
CentroidDisulfideEnergyContainer
)
count_static_memory()
(in
DensePDEdge
)
calculate_interres()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
clone()
(in
DisulfideMatchingEnergy
)
count_static_memory()
(in
DensePDInteractionGraph
)
calculate_interres()
(in
TableLookupEtableEnergy
)
clone()
(in
DisulfideMatchingEnergyContainer
)
count_static_memory()
(in
DensePDNode
)
calculate_intra_res_hbonds()
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
clone()
(in
FullatomDisulfideEnergy
)
count_static_memory()
(in
DoubleDensePDEdge
)
calculate_intrares()
(in
AnalyticEtableEnergy
)
clone()
(in
FullatomDisulfideEnergyContainer
)
count_static_memory()
(in
DoubleDensePDInteractionGraph
)
calculate_intrares()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
clone()
(in
NCaCaC_Dihedral_Func
)
count_static_memory()
(in
DoubleDensePDNode
)
calculate_intrares()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
clone()
(in
SGSG_Dihedral_Func
)
count_static_memory()
(in
DoubleLazyEdge
)
calculate_intrares()
(in
TableLookupEtableEnergy
)
clone()
(in
SG_Dist_Func
)
count_static_memory()
(in
DoubleLazyInteractionGraph
)
calculate_ligand_CoM()
(in
PlaidFingerprint
)
clone()
(in
BasePartner
)
count_static_memory()
(in
DoubleLazyNode
)
calculate_lk_ball_atom_energies()
(in
LK_BallEnergy
)
clone()
(in
DNAChiEnergy
)
count_static_memory()
(in
EdgeBase
)
calculate_lk_ball_atom_energies_cp()
(in
LK_BallEnergy
)
clone()
(in
DNATorsionEnergy
)
count_static_memory()
(in
FASTEREdge
)
calculate_lk_desolvation_of_single_atom_by_residue()
(in
LK_BallEnergy
)
clone()
(in
FAElecContextData
)
count_static_memory()
(in
FASTERInteractionGraph
)
calculate_lk_desolvation_of_single_atom_by_residue_no_count_pair()
(in
LK_BallEnergy
)
clone()
(in
FA_ElecEnergy
)
count_static_memory()
(in
FASTERNode
)
calculate_lowres_ref_energy()
(in
DockingEnsemble
)
clone()
(in
FA_ElecEnergyAroAll
)
count_static_memory()
(in
FixedBBEdge
)
calculate_neighbor_table()
(in
PointMutScanDriver
)
clone()
(in
FA_ElecEnergyAroAro
)
count_static_memory()
(in
LazyEdge
)
calculate_orbital_icoor()
(in
AssignOrbitals
)
clone()
(in
FA_GrpElecEnergy
)
count_static_memory()
(in
LazyInteractionGraph
)
calculate_pcs_score()
(in
PCS_Energy
)
clone()
(in
RNA_FA_ElecEnergy
)
count_static_memory()
(in
LazyNode
)
calculate_pcs_score()
(in
PCS_Energy_Ts1
)
clone()
(in
ElecDensAllAtomCenEnergy
)
count_static_memory()
(in
LinearMemEdge
)
calculate_pcs_score()
(in
PCS_Energy_Ts2
)
clone()
(in
ElecDensCenEnergy
)
count_static_memory()
(in
LinearMemNode
)
calculate_pcs_score()
(in
PCS_Energy_Ts3
)
clone()
(in
ElecDensEnergy
)
count_static_memory()
(in
LinearMemoryInteractionGraph
)
calculate_pcs_score()
(in
PCS_Energy_Ts4
)
clone()
(in
FastDensEnergy
)
count_static_memory()
(in
NodeBase
)
calculate_pcs_score_on_PCS_data_center_CA()
(in
PcsEnergy
)
clone()
(in
PattersonCorrEnergy
)
count_static_memory()
(in
OnTheFlyEdge
)
calculate_per_position_scores()
(in
SequenceAlignment
)
clone()
(in
ElecDensAtomwiseEnergy
)
count_static_memory()
(in
OnTheFlyNode
)
calculate_per_residue_interface_score()
(in
PeptideDeriverFilter
)
clone()
(in
AnalyticEtableEnergy
)
count_static_memory()
(in
PDEdge
)
calculate_plane_axes()
(in
EllipsoidalRandomizationMover
)
clone()
(in
BaseEtableEnergy_T_core_scoring_etable_AnalyticEtableEnergy_T
)
count_static_memory()
(in
PDInteractionGraph
)
calculate_pool_diversity()
(in
MultiObjective
)
clone()
(in
BaseEtableEnergy_T_core_scoring_etable_TableLookupEtableEnergy_T
)
count_static_memory()
(in
PDNode
)
calculate_protein_CoM()
(in
NonPlaidFingerprint
)
clone()
(in
TableLookupEtableEnergy
)
count_static_memory()
(in
PrecomputedPairEnergiesEdge
)
calculate_rg_score()
(in
RG_Energy_Fast
)
clone()
(in
Coulomb
)
count_static_memory()
(in
SimpleEdge
)
calculate_rg_score()
(in
RG_LocalEnergy
)
clone()
(in
CentroidScatter
)
count_static_memory()
(in
SimpleInteractionGraph
)
calculate_rho_fast2()
(in
FiberDiffractionEnergyDens
)
clone()
(in
FAScatter
)
count_static_memory()
(in
SimpleNode
)
calculate_rigid_matrix()
(in
rosetta.core.chemical._core_chemical_
)
clone()
(in
FiberDiffractionEnergy
)
count_static_memory()
(in
SymmLinearMemEdge
)
calculate_rmsd()
(in
AnchoredDesignMover
)
clone()
(in
FiberDiffractionEnergyDens
)
count_static_memory()
(in
SymmLinearMemNode
)
calculate_score_sum_of_pairs()
(in
SequenceAlignment
)
clone()
(in
AmberPeriodicFunc
)
count_static_memory()
(in
SymmLinearMemoryInteractionGraph
)
calculate_scores_and_tensors_from_pose_and_PCS_data()
(in
PCS_Energy
)
clone()
(in
CharmmPeriodicFunc
)
count_static_memory()
(in
SymmMinimalistEdge
)
calculate_scores_and_tensors_from_pose_and_PCS_data()
(in
PCS_Energy_Ts1
)
clone()
(in
CircularGeneral1D_Func
)
count_static_memory()
(in
SymmMinimalistInteractionGraph
)
calculate_scores_and_tensors_from_pose_and_PCS_data()
(in
PCS_Energy_Ts2
)
clone()
(in
CircularHarmonicFunc
)
count_static_memory()
(in
SymmMinimalistNode
)
calculate_scores_and_tensors_from_pose_and_PCS_data()
(in
PCS_Energy_Ts3
)
clone()
(in
CircularPowerFunc
)
count_static_memory()
(in
SymmOnTheFlyEdge
)
calculate_scores_and_tensors_from_pose_and_PCS_data()
(in
PCS_Energy_Ts4
)
clone()
(in
CircularSigmoidalFunc
)
count_static_memory()
(in
SymmOnTheFlyNode
)
calculate_stability_metric()
(in
GasteigerAtomTypeData
)
clone()
(in
CircularSplineFunc
)
count_static_memory()
(in
EnergyEdge
)
calculate_statistics()
(in
rosetta.protocols.ncbb._protocols_ncbb_
)
clone()
(in
ConstantFunc
)
count_static_memory()
(in
EnergyNode
)
calculate_tensor_and_cost_with_svd()
(in
PCS_data_per_lanthanides
)
clone()
(in
CountViolFunc
)
count_static_memory()
(in
MinimizationEdge
)
calculate_tensor_and_cost_with_svd()
(in
PcsDataLanthanide
)
clone()
(in
EtableFunc
)
count_static_memory()
(in
MinimizationNode
)
calculate_tensor_and_cost_with_svd()
(in
PCS_data_per_lanthanides_Ts1
)
clone()
(in
FadeFunc
)
count_static_memory()
(in
TenANeighborEdge
)
calculate_tensor_and_cost_with_svd()
(in
PCS_data_per_lanthanides_Ts2
)
clone()
(in
FlatHarmonicFunc
)
count_static_memory()
(in
TenANeighborNode
)
calculate_tensor_and_cost_with_svd()
(in
PCS_data_per_lanthanides_Ts3
)
clone()
(in
Func
)
count_static_memory()
(in
TwelveANeighborEdge
)
calculate_tensor_and_cost_with_svd()
(in
PCS_data_per_lanthanides_Ts4
)
clone()
(in
GaussianChainDoubleFunc
)
count_static_memory()
(in
TwelveANeighborNode
)
calculate_tensor_only_with_svd()
(in
PcsDataLanthanide
)
clone()
(in
GaussianChainFunc
)
count_static_memory()
(in
ConstraintEdge
)
calculate_total_cst_score()
(in
AmbiguousConstraint
)
clone()
(in
GaussianChainQuadrupleFunc
)
count_static_memory()
(in
ConstraintNode
)
calculate_total_cst_score()
(in
KofNConstraint
)
clone()
(in
GaussianChainSingleFunc
)
count_static_memory()
(in
FlexbbEdge
)
calculate_tracer_visibilities()
(in
Tracer
)
clone()
(in
GaussianChainTripleFunc
)
count_static_memory()
(in
FlexbbNode
)
calculated()
(in
CenListInfo
)
clone()
(in
GaussianFunc
)
count_static_memory()
(in
MinimalistFlexbbEdge
)
calculated()
(in
MembraneEmbed
)
clone()
(in
HarmonicFunc
)
count_static_memory()
(in
MinimalistFlexbbNode
)
calculated()
(in
Membrane_FAEmbed
)
clone()
(in
IdentityFunc
)
count_static_memory()
(in
OTFFlexbbEdge
)
calculated()
(in
RNA_CentroidInfo
)
clone()
(in
KarplusFunc
)
count_static_memory()
(in
OTFFlexbbNode
)
calculated()
(in
RNA_FilteredBaseBaseInfo
)
clone()
(in
LinearPenaltyFunction
)
count_trial()
(in
MultiTemperatureTrialCounter
)
calculated()
(in
RNA_RawBaseBaseInfo
)
clone()
(in
MinMultiHarmonicFunc
)
count_trial()
(in
TrialCounter
)
calculated()
(in
RNA_ScoringInfo
)
clone()
(in
MixtureFunc
)
count_water()
(in
NumNeighborsSelector
)
calculated()
(in
InterfaceInfo
)
clone()
(in
PeriodicFunc
)
Counter
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
calculated_atom_id_domain_map()
(in
AllowInsert
)
clone()
(in
SOGFunc
)
CounterAP
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
calculateDensityMap()
(in
PhenixInterface
)
clone()
(in
ScalarWeightedFunc
)
CounterCAP
(in
rosetta.numeric.geometry.hashing._numeric_geometry_hashing_
)
Calculator
(in
rosetta.numeric._numeric_
)
clone()
(in
SigmoidFunc
)
CountFromLeft
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
calculator()
(in
MetricValueGetter
)
clone()
(in
SkipViolFunc
)
CountFromLeftAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
calculator_name()
(in
NPDPropCalculatorCreator
)
clone()
(in
SoedingFunc
)
CountFromLeftCAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
CalculatorAP
(in
rosetta.numeric._numeric_
)
clone()
(in
SplineFunc
)
CountPairAll
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorCAP
(in
rosetta.numeric._numeric_
)
clone()
(in
SquareWell2Func
)
CountPairAllAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFactory
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
clone()
(in
SquareWellFunc
)
CountPairAllCAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFactoryAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
clone()
(in
SumFunc
)
CountPairCrossover3
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFactoryCAP
(in
rosetta.core.pose.metrics._core_pose_metrics_
)
clone()
(in
TopOutFunc
)
CountPairCrossover3AP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFilter
(in
rosetta.protocols.filters._protocols_filters_
)
clone()
(in
USOGFunc
)
CountPairCrossover3CAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFilterAP
(in
rosetta.protocols.filters._protocols_filters_
)
clone()
(in
ContextDependentGeometricSolEnergy
)
CountPairCrossover4
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFilterCAP
(in
rosetta.protocols.filters._protocols_filters_
)
clone()
(in
ContextIndependentGeometricSolEnergy
)
CountPairCrossover4AP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFilterCreator
(in
rosetta.protocols.filters._protocols_filters_
)
clone()
(in
ExactOccludedHbondSolEnergy
)
CountPairCrossover4CAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CalculatorFilterCreatorAP
(in
rosetta.protocols.filters._protocols_filters_
)
clone()
(in
OccludedHbondSolEnergy
)
CountPairData_1_1
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
CalculatorFilterCreatorCAP
(in
rosetta.protocols.filters._protocols_filters_
)
clone()
(in
OccludedHbondSolEnergy_onebody
)
CountPairData_1_1AP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
call_getCoM()
(in
ElectronDensity
)
clone()
(in
HackAroEnergy
)
CountPairData_1_1CAP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
call_getOrigin()
(in
ElectronDensity
)
clone()
(in
HBondEnergy
)
CountPairData_1_2
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
call_order()
(in
ParsedProtocol
)
clone()
(in
HBondSet
)
CountPairData_1_2AP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
call_output_observers()
(in
Job
)
clone()
(in
DDPscore
)
CountPairData_1_2CAP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
call_output_observers()
(in
JobOutputter
)
clone()
(in
LoopCloseEnergy
)
CountPairData_1_3
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
call_setup()
(in
PackRotamersMoverLazy
)
clone()
(in
FaMPEnvEnergy
)
CountPairData_1_3AP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
calpha_superimpose_pose()
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
FaMPEnvSmoothEnergy
)
CountPairData_1_3CAP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
calpha_superimpose_with_mapping()
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
FaMPSolvEnergy
)
CountPairDataGeneric
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
calRMSD()
(in
SmallMol
)
clone()
(in
MPCbetaEnergy
)
CountPairDataGenericAP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
came_from()
(in
Cell
)
clone()
(in
MPEnvEnergy
)
CountPairDataGenericCAP
(in
rosetta.core.scoring.etable.etrie._core_scoring_etable_etrie_
)
camelid_last_loop
(in
CDRNameEnum
)
clone()
(in
MPLipoEnergy
)
CountPairFactory
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
camelid_last_loop
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
MPNonHelixPenalty
)
CountPairFactoryAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
camelid_last_loop
(in
rosetta.protocols.antibody
)
clone()
(in
MPPairEnergy
)
CountPairFactoryCAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CamShiftEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
MPTMProjPenalty
)
CountPairFunction
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CamShiftEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
MPTerminiPenalty
)
CountPairFunctionAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CamShiftEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
BurialEnergy
)
CountPairFunctionCAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CamShiftEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
CartesianBondedEnergy
)
CountPairGeneric
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CamShiftEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
CenHBEnergy
)
CountPairGenericAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CamShiftEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
CenPairEnergy
)
CountPairGenericCAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CAN_CONTROL
(in
rosetta.protocols.environment.claims
)
clone()
(in
CenRotEnvEnergy
)
CountPairNone
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CAN_CONTROL
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clone()
(in
CenRotPairEnergy
)
CountPairNoneAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CAN_CONTROL
(in
ClaimStrength
)
clone()
(in
ChainbreakEnergy
)
CountPairNoneCAP
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
)
CAN_CONTROL
(in
PrioSubtype
)
clone()
(in
ChemicalShiftAnisotropyEnergy
)
counts()
(in
MultiDimensionalHistogram
)
CAN_CONTROL
(in
ControlStrength
)
clone()
(in
ContactOrderEnergy
)
counts()
(in
ContactCounts
)
CAN_INIT
(in
DofClaim
)
clone()
(in
ContextDependentLRTwoBodyEnergy
)
CountUnsaturatedNeighbors()
(in
PossibleAtomTypesForAtom
)
CAN_INIT
(in
ClaimRight
)
clone()
(in
ContextDependentOneBodyEnergy
)
CountViolFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
cancel_batches_previous_to()
(in
BaseArchiveManager
)
clone()
(in
ContextDependentTwoBodyEnergy
)
CountViolFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
candidate_res_atoms_reqd_near_target_atom()
(in
AtomAngleSecMatchRPE
)
clone()
(in
ContextIndependentLRTwoBodyEnergy
)
CountViolFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
candidate_res_atoms_reqd_near_target_atom()
(in
AtomDihedralSecMatchRPE
)
clone()
(in
ContextIndependentOneBodyEnergy
)
CoupledMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
candidate_res_atoms_reqd_near_target_atom()
(in
AtomDistanceSecMatchRPE
)
clone()
(in
ContextIndependentTwoBodyEnergy
)
CoupledMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
candidate_res_atoms_reqd_near_target_atom()
(in
AtomGeometrySecMatchRPE
)
clone()
(in
CustomAtomPairEnergy
)
CoupledMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
candidate_res_atoms_reqd_near_target_atom()
(in
GeometrySecMatchRPE
)
clone()
(in
D2H_SA_Energy
)
CoupledMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
candidate_res_atoms_reqd_near_target_atom()
(in
ScoringSecMatchRPE
)
clone()
(in
DNA_BaseEnergy
)
CoupledMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
candidate_res_atoms_reqd_near_target_atom()
(in
SecMatchResiduePairEvaluator
)
clone()
(in
DipolarCouplingEnergy
)
CoupledMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
CandidatesCollector
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clone()
(in
DirectReadoutEnergy
)
cov()
(in
rosetta.numeric.statistics._numeric_statistics_
)
CandidatesCollectorAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clone()
(in
DistanceChainbreakEnergy
)
cov_with_provided_mean()
(in
rosetta.numeric.statistics._numeric_statistics_
)
CandidatesCollectorCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clone()
(in
EnergyMethod
)
coval()
(in
heap
)
canonical_atom_count()
(in
rosetta.core.pose._core_pose_
)
clone()
(in
EnergyMethodOptions
)
covalent_connections()
(in
EnzdesCstParamCache
)
canonical_residue_count()
(in
rosetta.core.pose._core_pose_
)
clone()
(in
EnvEnergy
)
CovalentConnectionReplaceInfo
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
canonical_sampling
(in
rosetta.protocols
)
clone()
(in
EnvSmoothEnergy
)
CovalentConnectionReplaceInfoAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
canonical_sampling_main()
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
clone()
(in
Fa_MbenvEnergy
)
CovalentConnectionReplaceInfoCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
Canonicalize()
(in
Quaternion
)
clone()
(in
Fa_MbsolvEnergy
)
CovalentRadius
(in
Element
)
CANONICALMOVER_WRITE_TO_FILE
(in
rosetta.basic
)
clone()
(in
FreeDOF_Energy
)
CovalentRadius
(in
Properties
)
CANONICALMOVER_WRITE_TO_FILE
(in
rosetta.basic._basic_
)
clone()
(in
GaussianOverlapEnergy
)
CovalentRadiusAromaticBond
(in
GasteigerAtomTypeData
)
CANONICALMOVER_WRITE_TO_FILE
(in
ProfTag
)
clone()
(in
GenBornEnergy
)
CovalentRadiusAromaticBond
(in
Properties
)
CanonicalSamplingMover
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
clone()
(in
GoapEnergy
)
CovalentRadiusDoubleBond
(in
GasteigerAtomTypeData
)
CanonicalSamplingMoverAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
clone()
(in
HybridVDW_Energy
)
CovalentRadiusDoubleBond
(in
Properties
)
CanonicalSamplingMoverCAP
(in
rosetta.protocols.canonical_sampling._protocols_canonical_sampling_
)
clone()
(in
IntermolEnergy
)
CovalentRadiusSingleBond
(in
GasteigerAtomTypeData
)
cap_ends()
(in
BackboneGridSampler
)
clone()
(in
LKB_ResidueInfo
)
CovalentRadiusSingleBond
(in
Properties
)
cap_espGrid()
(in
ElectrostaticpotentialGrid
)
clone()
(in
LKB_ResiduesInfo
)
CovalentRadiusTripleBond
(in
GasteigerAtomTypeData
)
capacity()
(in
heap
)
clone()
(in
LK_BallEnergy
)
CovalentRadiusTripleBond
(in
Properties
)
CARBOHYDRATE
(in
rosetta
)
clone()
(in
LK_PolarNonPolarEnergy
)
CovalentResidueNetwork
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
CARBOHYDRATE
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rosetta.core.chemical
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LK_hack
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CovalentResidueNetworkAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
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CARBOHYDRATE
(in
rosetta.core.chemical._core_chemical_
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clone()
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LinearChainbreakEnergy
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CovalentResidueNetworkCAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
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CARBOHYDRATE
(in
ResidueProperty
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clone()
(in
LongRangeTwoBodyEnergy
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CP_CROSSOVER_3
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rosetta.core.scoring.etable.count_pair
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carbohydrate_info()
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ResidueType
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clone()
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MMBondAngleEnergy
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CP_CROSSOVER_3
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CPCrossoverBehavior
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carbohydrate_info()
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Residue
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clone()
(in
MMBondLengthEnergy
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CP_CROSSOVER_3
(in
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CarbohydrateInfo
(in
rosetta.core.chemical.carbohydrates._core_chemical_carbohydrates_
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clone()
(in
MMLJEnergyInter
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CP_CROSSOVER_4
(in
rosetta.core.scoring.etable.count_pair
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CarbohydrateInfoAP
(in
rosetta.core.chemical.carbohydrates._core_chemical_carbohydrates_
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clone()
(in
MMLJEnergyIntra
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CP_CROSSOVER_4
(in
CPCrossoverBehavior
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CarbohydrateInfoCAP
(in
rosetta.core.chemical.carbohydrates._core_chemical_carbohydrates_
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clone()
(in
MMTorsionEnergy
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CP_CROSSOVER_4
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
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carbohydrates
(in
rosetta.core.chemical
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clone()
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MembraneCbetaEnergy
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CP_MULTIPLE_BONDS_OR_PSEUDOBONDS
(in
rosetta.core.scoring.etable.count_pair
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carbohydrates
(in
rosetta.core.io
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clone()
(in
MembraneCenPairEnergy
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CP_MULTIPLE_BONDS_OR_PSEUDOBONDS
(in
CPResidueConnectionType
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carbohydrates
(in
rosetta.core.pose
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clone()
(in
MembraneEnvEnergy
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CP_MULTIPLE_BONDS_OR_PSEUDOBONDS
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
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carbohydrates
(in
rosetta.core.scoring
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clone()
(in
MembraneEnvPenalties
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CP_NO_BONDS
(in
rosetta.core.scoring.etable.count_pair
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carbohydrates
(in
rosetta.core.scoring.methods
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clone()
(in
MembraneEnvSmoothEnergy
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CP_NO_BONDS
(in
CPResidueConnectionType
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carbon_hbonds
(in
rosetta.core.scoring
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clone()
(in
MembraneLipo
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CP_NO_BONDS
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
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CarbonHBondEnergy
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
MissingEnergy
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CP_ONE_BOND
(in
rosetta.core.scoring.etable.count_pair
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CarbonHBondEnergyAP
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
NMerPSSMEnergy
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CP_ONE_BOND
(in
CPResidueConnectionType
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CarbonHBondEnergyCAP
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
NMerRefEnergy
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CP_ONE_BOND
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
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CarbonHBondEnergyCreator
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
NMerSVMEnergy
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CPCrossoverBehavior
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
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CarbonHBondEnergyCreatorAP
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
OmegaTetherEnergy
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CPDataCorrespondence
(in
rosetta.core.scoring.trie._core_scoring_trie_
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CarbonHBondEnergyCreatorCAP
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
OneBodyEnergy
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CPDataCorrespondenceAP
(in
rosetta.core.scoring.trie._core_scoring_trie_
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CarbonHBondPotential
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
OtherPoseEnergy
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CPDataCorrespondenceCAP
(in
rosetta.core.scoring.trie._core_scoring_trie_
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CarbonHBondPotentialAP
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
PBLifetimeCache
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CPParameter
(in
rosetta.core.chemical._core_chemical_
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CarbonHBondPotentialCAP
(in
rosetta.core.scoring.carbon_hbonds._core_scoring_carbon_hbonds_
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clone()
(in
P_AA_Energy
)
CPResidueConnectionType
(in
rosetta.core.scoring.etable.count_pair._core_scoring_etable_count_pair_
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CARBOXYLATION
(in
rosetta
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clone()
(in
P_AA_pp_Energy
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cprev_n_bond_length_params()
(in
ResidueCartBondedParameters
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CARBOXYLATION
(in
rosetta.core.chemical
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clone()
(in
PackStatEnergy
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crankshaft_alpha_gamma()
(in
RNA_TorsionMover
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CARBOXYLATION
(in
rosetta.core.chemical._core_chemical_
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clone()
(in
PairEnergy
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cranny_packer()
(in
VIP_Mover
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CARBOXYLATION
(in
VariantType
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clone()
(in
PeptideBondEnergy
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create()
(in
BBTorsionAndAnglesSRFD
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careful_base_pair_classifier()
(in
RNA_DMS_LowResolutionPotential
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clone()
(in
PoissonBoltzmannEnergy
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create()
(in
BBTorsionSRFD
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carry_out_filtering()
(in
RNA_FilteredBaseBaseInfo
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clone()
(in
ProClosureEnergy
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create()
(in
DownJumpSRFD
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cart2frac()
(in
ElectronDensity
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clone()
(in
ProQ_Energy
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create()
(in
IndependentBBTorsionSRFD
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cart2idx()
(in
PoissonBoltzmannPotential
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clone()
(in
RG_Energy_Fast
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create()
(in
SecstructSRFD
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cart2idx()
(in
ElectronDensity
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clone()
(in
RG_LocalEnergy
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create()
(in
SingleResidueFragData
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cart_bonded
(in
rosetta
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clone()
(in
RG_MinData
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create()
(in
UpJumpSRFD
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cart_bonded
(in
ScoreType
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clone()
(in
RMS_Energy
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create()
(in
CacheableObserver
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cart_bonded
(in
rosetta.core.scoring._core_scoring_
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clone()
(in
Rama2BOffsetEnergy
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create()
(in
LengthEventCollector
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cart_bonded
(in
rosetta.core.scoring
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clone()
(in
RamachandranEnergy
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create()
(in
SpecialSegmentsObserver
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cart_bonded_angle
(in
rosetta
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clone()
(in
RamachandranEnergy2B
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create()
(in
RotamerDumpMover
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cart_bonded_angle
(in
ScoreType
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clone()
(in
ReferenceEnergy
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create()
(in
AbrelaxMover
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cart_bonded_angle
(in
rosetta.core.scoring._core_scoring_
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clone()
(in
ReferenceEnergyNoncanonical
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create()
(in
ClassicAbinitio
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cart_bonded_angle
(in
rosetta.core.scoring
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clone()
(in
ResidualDipolarCouplingEnergy
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create()
(in
ConstraintFragmentSampler
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cart_bonded_length
(in
rosetta
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clone()
(in
ResidualDipolarCouplingEnergy_Rohl
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create()
(in
DomainAssembly
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cart_bonded_length
(in
ScoreType
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clone()
(in
SA_Energy
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create()
(in
DoubleLayerKinematicAbinitio
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cart_bonded_length
(in
rosetta.core.scoring._core_scoring_
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clone()
(in
SecondaryStructureEnergy
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create()
(in
FoldConstraints
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cart_bonded_length
(in
rosetta.core.scoring
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clone()
(in
SequenceDependentRefEnergy
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create()
(in
FragmentSampler
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cart_bonded_lr
(in
LongRangeEnergyType
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clone()
(in
ShortRangeTwoBodyEnergy
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create()
(in
JumpingFoldConstraintsWrapper
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cart_bonded_lr
(in
rosetta.core.scoring.methods._core_scoring_methods_
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clone()
(in
SmoothCenPairEnergy
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create()
(in
KinematicAbinitio
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cart_bonded_lr
(in
rosetta.core.scoring.methods
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clone()
(in
SmoothEnvEnergy
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create()
(in
KinematicTaskControl
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cart_bonded_torsion
(in
rosetta
)
clone()
(in
SuckerEnergy
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create()
(in
LoopJumpFoldCst
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cart_bonded_torsion
(in
ScoreType
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clone()
(in
SymmetricLigandEnergy
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create()
(in
MembraneAbinitio
)
cart_bonded_torsion
(in
rosetta.core.scoring._core_scoring_
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clone()
(in
TwoBodyEnergy
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create()
(in
Protocol
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cart_bonded_torsion
(in
rosetta.core.scoring
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clone()
(in
UnfoldedStateEnergy
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create()
(in
ResolutionSwitcher
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cart_min()
(in
StepWiseProteinModelerOptions
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clone()
(in
WaterAdductHBondEnergy
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create()
(in
AbscriptLoopCloserCM
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cart_numerical_derivative_check()
(in
rosetta.core.optimization._core_optimization_
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clone()
(in
WaterAdductIntraEnergy
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create()
(in
AbscriptMover
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cart_size()
(in
MotifHash
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clone()
(in
WholeStructureEnergy
)
create()
(in
AbscriptStageMover
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cart_size()
(in
XformScore
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clone()
(in
YHHPlanarityEnergy
)
create()
(in
ConstraintPreparer
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CartBondedParameters
(in
rosetta.core.scoring.methods._core_scoring_methods_
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clone()
(in
pHEnergy
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create()
(in
FragmentCM
)
CartBondedParametersAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
SugarBackboneEnergy
)
create()
(in
FragmentJumpCM
)
CartBondedParametersCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
DFIRE_Energy
)
create()
(in
RigidChunkCM
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cartesian
(in
rosetta.protocols
)
clone()
(in
NVscore
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create()
(in
StagePreparer
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cartesian()
(in
RelaxProtocolBase
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clone()
(in
OrbitalsScore
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create()
(in
StructPerturberCM
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cartesian()
(in
MinMover
)
clone()
(in
HolesEnergy
)
create()
(in
InterfaceAnalyzerMover
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cartesian()
(in
SaneMinMover
)
clone()
(in
HolesEnergyRes
)
create()
(in
LoopAnalyzerMover
)
cartesian_collect_atompairE_deriv()
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
SurfEnergy
)
create()
(in
PackStatMover
)
cartesian_collect_torsional_deriv()
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
SurfVolEnergy
)
create()
(in
AnchoredDesignMover
)
cartesian_dfunc()
(in
rosetta.core.optimization._core_optimization_
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clone()
(in
RG_Energy_RNA
)
create()
(in
AnchoredPerturbMover
)
CartesianAtom
(in
rosetta.protocols.cartesian._protocols_cartesian_
)
clone()
(in
RNA_BulgeEnergy
)
create()
(in
AnchoredRefineMover
)
CartesianAtomAP
(in
rosetta.protocols.cartesian._protocols_cartesian_
)
clone()
(in
RNA_CentroidInfo
)
create()
(in
AntibodyModelerProtocol
)
CartesianAtomCAP
(in
rosetta.protocols.cartesian._protocols_cartesian_
)
clone()
(in
RNA_FilteredBaseBaseInfo
)
create()
(in
CDRsMinPackMin
)
CartesianBondedEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RNA_FullAtomStackingEnergy
)
create()
(in
CloseOneCDRLoop
)
CartesianBondedEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RNA_FullAtomVDW_BasePhosphate
)
create()
(in
GraftCDRLoopsProtocol
)
CartesianBondedEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RNA_JR_SuiteEnergy
)
create()
(in
GraftOneCDRLoop
)
CartesianBondedEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RNA_LJ_BaseEnergy
)
create()
(in
GraftedStemOptimizer
)
CartesianBondedEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RNA_Mg_Energy
)
create()
(in
H3CterInsert
)
CartesianBondedEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RNA_PairwiseLowResolutionEnergy
)
create()
(in
H3PerturbCCD
)
CartesianHybridize
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
RNA_RawBaseBaseInfo
)
create()
(in
H3RefineCCD
)
CartesianHybridizeAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
RNA_ScoringInfo
)
create()
(in
LHRepulsiveRamp
)
CartesianHybridizeCAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
RNA_SugarCloseEnergy
)
create()
(in
ModelCDRH3
)
CartesianMD
(in
rosetta.protocols.md._protocols_md_
)
clone()
(in
RNA_SuiteEnergy
)
create()
(in
RefineBetaBarrel
)
CartesianMDAP
(in
rosetta.protocols.md._protocols_md_
)
clone()
(in
RNA_TorsionEnergy
)
create()
(in
RefineOneCDRLoop
)
CartesianMDCAP
(in
rosetta.protocols.md._protocols_md_
)
clone()
(in
RNA_VDW_Energy
)
create()
(in
RefineOneCDRLoopCentroid
)
CartesianMDCreator
(in
rosetta.protocols.md._protocols_md_
)
clone()
(in
StackElecEnergy
)
create()
(in
CDRDihedralConstraintMover
)
CartesianMDCreatorAP
(in
rosetta.protocols.md._protocols_md_
)
clone()
(in
RNA_ChemicalShiftEnergy
)
create()
(in
ParatopeEpitopeSiteConstraintMover
)
CartesianMDCreatorCAP
(in
rosetta.protocols.md._protocols_md_
)
clone()
(in
RNA_ChemicalMappingEnergy
)
create()
(in
ParatopeSiteConstraintMover
)
CartesianMinimizer
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
RNA_DataBackboneEnergy
)
create()
(in
AntibodyDesignMover
)
CartesianMinimizerAP
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
RNA_DataInfo
)
create()
(in
AntibodyDesignProtocol
)
CartesianMinimizerCAP
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
FastSAXSEnergy
)
create()
(in
MutateFrameworkForCluster
)
CartesianMinimizerMap
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
SAXSEnergy
)
create()
(in
AntibodyModeler
)
CartesianMinimizerMapAP
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
SurfaceEnergies
)
create()
(in
CDRH3Modeler
)
CartesianMinimizerMapCAP
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
symEnergy
)
create()
(in
CloseOneMover
)
CartesianMultifunc
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
SymmetricEnergies
)
create()
(in
GraftMover
)
CartesianMultifuncAP
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
SymmetricScoreFunction
)
create()
(in
GraftOneMover
)
CartesianMultifuncCAP
(in
rosetta.core.optimization._core_optimization_
)
clone()
(in
TrieCollection
)
create()
(in
LoopRlxMover
)
CartesianNormalModeMover
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
clone()
(in
ChemicalShiftScoringScheme
)
create()
(in
BackrubMover
)
CartesianNormalModeMoverAP
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
clone()
(in
ChemicalShiftSequence
)
create()
(in
BackrubProtocol
)
CartesianNormalModeMoverCAP
(in
rosetta.protocols.normalmode._protocols_normalmode_
)
clone()
(in
CompassScoringScheme
)
create()
(in
BackrubSidechainMover
)
CartesianSampler
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
CompositeScoringScheme
)
create()
(in
CanonicalSamplingMover
)
CartesianSamplerAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
CompositeSequence
)
create()
(in
FixedTemperatureController
)
CartesianSamplerCAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
DPScoringScheme
)
create()
(in
MetricRecorder
)
CartesianSamplerCreator
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
L1ScoringScheme
)
create()
(in
MetropolisHastingsMover
)
CartesianSamplerCreatorAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
MatrixScoringScheme
)
create()
(in
ParallelTempering
)
CartesianSamplerCreatorCAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone()
(in
PairScoringScheme
)
create()
(in
ProgressBarObserver
)
CartesianSearchPattern
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
clone()
(in
ProfSimScoringScheme
)
create()
(in
SidechainMetropolisHastingsMover
)
CartesianSearchPatternAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
clone()
(in
ScoringScheme
)
create()
(in
SimulatedTempering
)
CartesianSearchPatternCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
clone()
(in
Sequence
)
create()
(in
TemperatureController
)
CartSCMinMultifuncAP
(in
rosetta.core.pack.scmin._core_pack_scmin_'
)
clone()
(in
SequenceAlignment
)
create()
(in
TemperingBase
)
CartSCMinMultifuncCAP
(in
rosetta.core.pack.scmin._core_pack_scmin_'
)
clone()
(in
SequenceCoupling
)
create()
(in
ThermodynamicMover
)
catalog()
(in
Librarian_T_core_fragment_picking_old_vall_scores_VallFragmentScore_core_fragment_picking_old_vall_eval_VallFragmentEval_core_fragment_picking_old_vall_gen_VallFragmentGen_core_fragment_picking_old_vall_VallLibrary_T
)
clone()
(in
SequenceProfile
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create()
(in
ThermodynamicObserver
)
catalog()
(in
VallLibrarian
)
clone()
(in
SimpleScoringScheme
)
create()
(in
TrialCounterObserver
)
catch_fragment()
(in
ShortLoopClosure
)
Clone()
(in
BicubicSpline
)
create()
(in
AssignToClustersMover
)
CatPiCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
clone()
(in
CubicSpline
)
create()
(in
ClusterBase
)
CatPiCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
Clone()
(in
PolycubicSpline
)
create()
(in
ClusterPhilStyle
)
CatPiCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
Clone()
(in
TricubicSpline
)
create()
(in
ClusterPhilStyle_Loop
)
CavityBall
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
clone()
(in
RotamerDumpMover
)
create()
(in
ClusterPhilStyle_PoseReporter
)
CavityBallAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
clone()
(in
AbrelaxMover
)
create()
(in
EnsembleConstraints
)
CavityBallCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
clone()
(in
ClassicAbinitio
)
create()
(in
EnsembleConstraints_Simple
)
CavityBallCluster
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
clone()
(in
ConstraintFragmentSampler
)
create()
(in
GatherPosesMover
)
CavityBallClusterAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
clone()
(in
DomainAssembly
)
create()
(in
CoarseRNA_LoopCloser
)
CavityBallClusterCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
clone()
(in
DoubleLayerKinematicAbinitio
)
create()
(in
ExtraThreadingMover
)
CB
(in
rosetta.protocols.frag_picker
)
clone()
(in
FoldConstraints
)
create()
(in
LoopRelaxMover
)
CB
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clone()
(in
FragmentSampler
)
create()
(in
LoopRelaxThreadingMover
)
CB
(in
ContactType
)
clone()
(in
JumpingFoldConstraintsWrapper
)
create()
(in
MultiThreadingMover
)
CB()
(in
BB_Pos
)
clone()
(in
KinematicAbinitio
)
create()
(in
PartialThreadingMover
)
CB()
(in
BB_Pos
)
clone()
(in
KinematicTaskControl
)
create()
(in
RecoverSideChainsMover
)
CB_Angle_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
LoopJumpFoldCst
)
create()
(in
StealLigandMover
)
CB_Angle_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
MembraneAbinitio
)
create()
(in
StealSideChainsMover
)
CB_Angle_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
Protocol
)
create()
(in
ThreadingMover
)
CB_atom_id()
(in
UpstreamResTypeGeometry
)
clone()
(in
ResolutionSwitcher
)
create()
(in
ContactMap
)
cb_dist_cut()
(in
InterGroupInterfaceByVectorSelector
)
clone()
(in
AbscriptLoopCloserCM
)
create()
(in
FitBfactorsMover
)
cb_dist_cut()
(in
DomainInterfaceFilter
)
clone()
(in
AbscriptMover
)
create()
(in
LoadDensityMapMover
)
CB_dist_cutoff()
(in
RestrictInterGroupVectorOperation
)
clone()
(in
AbscriptStageMover
)
create()
(in
RecomputeDensityMapMover
)
CB_dist_cutoff()
(in
RestrictToInterfaceVectorOperation
)
clone()
(in
ConstraintPreparer
)
create()
(in
SetCrystWeightMover
)
Cb_Distance_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FragmentCM
)
create()
(in
SetRefinementOptionsMover
)
Cb_Distance_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FragmentJumpCM
)
create()
(in
TagPoseWithRefinementStatsMover
)
Cb_Distance_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
JumpSampleData
)
create()
(in
UpdateSolventMover
)
cb_force()
(in
PlacementAuctionMover
)
clone()
(in
RigidChunkCM
)
create()
(in
CreateAngleConstraint
)
cb_force()
(in
PlacementMinimizationMover
)
clone()
(in
StagePreparer
)
create()
(in
CreateDistanceConstraint
)
cb_weight()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
StructPerturberCM
)
create()
(in
CreateTorsionConstraint
)
cb_weight_map_from_pose()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
InterfaceAnalyzerMover
)
create()
(in
DeclareBond
)
cb_weights_from_map()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
LoopAnalyzerMover
)
create()
(in
PeptideStubMover
)
cb_weights_from_pose()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
PackStatMover
)
create()
(in
ddGMover
)
cbeta
(in
rosetta
)
clone()
(in
PeptideDeriverFilter
)
create()
(in
GreedyOptMutationMover
)
cbeta
(in
ScoreType
)
clone()
(in
AnchorMoversData
)
create()
(in
ParetoOptMutationMover
)
cbeta
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
AnchoredDesignMover
)
create()
(in
DesignProteinBackboneAroundDNA
)
cbeta
(in
rosetta.core.scoring
)
clone()
(in
AnchoredPerturbMover
)
create()
(in
DnaInterfaceMinMover
)
cbeta_smooth
(in
rosetta
)
clone()
(in
AnchoredRefineMover
)
create()
(in
DnaInterfaceMultiStateDesign
)
cbeta_smooth
(in
ScoreType
)
clone()
(in
AntibodyInfo
)
create()
(in
DnaInterfacePacker
)
cbeta_smooth
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
AntibodyModelerProtocol
)
create()
(in
SeparateDnaFromNonDna
)
cbeta_smooth
(in
rosetta.core.scoring
)
clone()
(in
CDRsMinPackMin
)
create()
(in
ConformerSwitchMover
)
CBScore
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
CloseOneCDRLoop
)
create()
(in
DockMCMCycle
)
CBScoreAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
GraftCDRLoopsProtocol
)
create()
(in
DockMCMProtocol
)
CBScoreCAP
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
GraftOneCDRLoop
)
create()
(in
DockMinMover
)
CBSG_Dihedral_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
GraftedStemOptimizer
)
create()
(in
DockSetupMover
)
CBSG_Dihedral_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
H3CterInsert
)
create()
(in
DockingEnsemblePrepackProtocol
)
CBSG_Dihedral_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
H3PerturbCCD
)
create()
(in
DockingHighRes
)
cbx()
(in
VallResidue
)
clone()
(in
H3RefineCCD
)
create()
(in
DockingHighResLegacy
)
cby()
(in
VallResidue
)
clone()
(in
LHRepulsiveRamp
)
create()
(in
DockingInitialPerturbation
)
cbz()
(in
VallResidue
)
clone()
(in
ModelCDRH3
)
create()
(in
DockingLowRes
)
ccd
(in
rosetta.protocols.loops.loop_closure
)
clone()
(in
RefineBetaBarrel
)
create()
(in
DockingLowResEnsemble
)
ccd_angle()
(in
rosetta.numeric._numeric_
)
clone()
(in
RefineOneCDRLoop
)
create()
(in
DockingPrepackProtocol
)
CCD_CLOSE
(in
rosetta.basic
)
clone()
(in
RefineOneCDRLoopCentroid
)
create()
(in
DockingProtocol
)
CCD_CLOSE
(in
rosetta.basic._basic_
)
clone()
(in
BasicCDRClusterSet
)
create()
(in
DockingSlideIntoContact
)
CCD_CLOSE
(in
ProfTag
)
clone()
(in
CDRCluster
)
create()
(in
EllipsoidalRandomizationMover
)
ccd_close()
(in
StepWiseProteinModelerOptions
)
clone()
(in
CDRDihedralConstraintMover
)
create()
(in
FaDockingSlideIntoContact
)
ccd_close_loops()
(in
rosetta.protocols.loops._protocols_loops_
)
clone()
(in
ParatopeEpitopeSiteConstraintMover
)
create()
(in
InterfaceSidechainMinMover
)
CCDEndsGraftMover
(in
rosetta.protocols.grafting._protocols_grafting_
)
clone()
(in
ParatopeSiteConstraintMover
)
create()
(in
SidechainMinMover
)
CCDEndsGraftMoverAP
(in
rosetta.protocols.grafting._protocols_grafting_
)
clone()
(in
AntibodyDesignMover
)
create()
(in
TemperedDocking
)
CCDEndsGraftMoverCAP
(in
rosetta.protocols.grafting._protocols_grafting_
)
clone()
(in
AntibodyDesignProtocol
)
create()
(in
MPDockingMover
)
CCDEndsGraftMoverCreator
(in
rosetta.protocols.grafting._protocols_grafting_
)
clone()
(in
CDRGraftDesignOptions
)
create()
(in
MPDockingSetupMover
)
CCDEndsGraftMoverCreatorAP
(in
rosetta.protocols.grafting._protocols_grafting_
)
clone()
(in
CDRSeqDesignOptions
)
create()
(in
SaneDockingProtocol
)
CCDEndsGraftMoverCreatorCAP
(in
rosetta.protocols.grafting._protocols_grafting_
)
clone()
(in
MutateFrameworkForCluster
)
create()
(in
AddAssemblyConstraints
)
CCDLoopClosureMover
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
clone()
(in
AddCDRProfileSetsOperation
)
create()
(in
AssembleLinkerMover
)
CCDLoopClosureMoverAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
clone()
(in
AddCDRProfilesOperation
)
create()
(in
CombineChainsMover
)
CCDLoopClosureMoverCAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
clone()
(in
DisableAntibodyRegionOperation
)
create()
(in
PostDockAssemblyScorer
)
CCDLoopClosureMoverCreator
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
clone()
(in
DisableCDRsOperation
)
create()
(in
BfactorFittingMover
)
CCDLoopClosureMoverCreatorAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
clone()
(in
RestrictToCDRsAndNeighbors
)
create()
(in
DensityMorphingMover
)
CCDLoopClosureMoverCreatorCAP
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
clone()
(in
AntibodyModeler
)
create()
(in
ReportFSC
)
CCluster
(in
rosetta.protocols.pockets._protocols_pockets_
)
clone()
(in
CDRH3Modeler
)
create()
(in
ScaleMapIntensities
)
CClusterAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
clone()
(in
CloseOneMover
)
create()
(in
SetupForDensityScoringMover
)
CClusterCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
clone()
(in
GraftMover
)
create()
(in
ClientMover
)
CClusterSet
(in
rosetta.protocols.pockets._protocols_pockets_
)
clone()
(in
GraftOneMover
)
create()
(in
CoMTrackerCM
)
CClusterSetAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
clone()
(in
LoopRlxMover
)
create()
(in
EnvMover
)
CClusterSetCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
clone()
(in
BackrubMover
)
create()
(in
ScriptCM
)
CD
(in
rosetta
)
clone()
(in
BackrubProtocol
)
create()
(in
MultipleDomainMover
)
cd_1b
(in
EnergyMethodType
)
clone()
(in
BackrubSidechainMover
)
create()
(in
RNA_DeNovoProtocol
)
cd_1b
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
BiasedMonteCarlo
)
create()
(in
RNA_FragmentMover
)
cd_1b
(in
rosetta.core.scoring.methods
)
clone()
(in
CanonicalSamplingMover
)
create()
(in
RNA_LoopCloser
)
cd_1b_types()
(in
ScoreFunction
)
clone()
(in
DbTrajectoryRecorder
)
create()
(in
RNA_Minimizer
)
cd_2b
(in
EnergyMethodType
)
clone()
(in
FixedTemperatureController
)
create()
(in
RNA_Relaxer
)
cd_2b
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
HamiltonianExchange
)
create()
(in
ReportToDB
)
cd_2b
(in
rosetta.core.scoring.methods
)
clone()
(in
MetricRecorder
)
create()
(in
TrajectoryReportToDB
)
cd_2b_begin()
(in
ScoreFunction
)
clone()
(in
MetropolisHastingsMover
)
create()
(in
SetupForFibrilMover
)
cd_2b_end()
(in
ScoreFunction
)
clone()
(in
PDBTrajectoryRecorder
)
create()
(in
BluePrintBDR
)
cd_2b_intrares_begin()
(in
ScoreFunction
)
clone()
(in
ParallelTempering
)
create()
(in
CircularPermutation
)
cd_2b_intrares_end()
(in
ScoreFunction
)
clone()
(in
ProgressBarObserver
)
create()
(in
MatchResiduesMover
)
cd_2b_types()
(in
ScoreFunction
)
clone()
(in
SidechainMetropolisHastingsMover
)
create()
(in
SheetConstraintsRCG
)
cd_lr_2b
(in
EnergyMethodType
)
clone()
(in
SilentTrajectoryRecorder
)
create()
(in
SetAACompositionPotential
)
cd_lr_2b
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
SimulatedTempering
)
create()
(in
SetSecStructEnergies
)
cd_lr_2b
(in
rosetta.core.scoring.methods
)
clone()
(in
TemperatureController
)
create()
(in
FlexPacker
)
cd_lr_2b_methods_begin()
(in
ScoreFunction
)
clone()
(in
TemperingBase
)
create()
(in
FlexPepDockingAbInitio
)
cd_lr_2b_methods_end()
(in
ScoreFunction
)
clone()
(in
ThermodynamicMover
)
create()
(in
FlexPepDockingLowRes
)
cd_lr_2b_types()
(in
ScoreFunction
)
clone()
(in
ThermodynamicObserver
)
create()
(in
FlexPepDockingProtocol
)
cdf_for_aa()
(in
Ramachandran
)
clone()
(in
TrialCounterObserver
)
create()
(in
FloppyTailMover
)
cdf_for_aa_for_torsion_bin()
(in
Ramachandran
)
clone()
(in
AssignToClustersMover
)
create()
(in
FlxbbDesign
)
CDFr
(in
rosetta.protocols.fldsgn.topology
)
clone()
(in
ClusterBase
)
create()
(in
FlxbbDesignPack
)
CDFr
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
clone()
(in
ClusterPhilStyle
)
create()
(in
InterlockAroma
)
CDFr
(in
SheetFoldType
)
clone()
(in
ClusterPhilStyle_Loop
)
create()
(in
BuildManager
)
cdr()
(in
CDRCluster
)
clone()
(in
ClusterPhilStyle_PoseReporter
)
create()
(in
BDR
)
cdr()
(in
CDRSeqDesignOptions
)
clone()
(in
EnsembleConstraints
)
create()
(in
VarLengthBuild
)
cdr_cluster_enum_to_string()
(in
CDRClusterEnumManager
)
clone()
(in
EnsembleConstraints_Simple
)
create()
(in
RemodelConstraintGenerator
)
CDR_CLUSTER_INFO
(in
CacheableDataType
)
clone()
(in
GatherPosesMover
)
create()
(in
NonlocalFrags
)
CDR_CLUSTER_INFO
(in
Enum
)
clone()
(in
CoarseRNA_LoopCloser
)
create()
(in
TorsionFragmentMover
)
cdr_cluster_is_present()
(in
CDRClusterEnumManager
)
clone()
(in
ExtraThreadingMover
)
create()
(in
GeneralizedKIC
)
cdr_cluster_string_to_enum()
(in
CDRClusterEnumManager
)
clone()
(in
IgnoreSubsetConstraintSet
)
create()
(in
AnchoredGraftMover
)
cdr_CN_anchor_distance()
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
LoopRelaxMover
)
create()
(in
CCDEndsGraftMover
)
cdr_definition_enum_to_string()
(in
AntibodyEnumManager
)
clone()
(in
LoopRelaxThreadingMover
)
create()
(in
GraftMoverBase
)
cdr_definition_is_present()
(in
AntibodyEnumManager
)
clone()
(in
MultiThreadingMover
)
create()
(in
DeleteRegionMover
)
cdr_definition_string_to_enum()
(in
AntibodyEnumManager
)
clone()
(in
PartialThreadingMover
)
create()
(in
InsertPoseIntoPoseMover
)
cdr_end
(in
CDRLandmarkEnum
)
clone()
(in
RecoverSideChainsMover
)
create()
(in
KeepRegionMover
)
cdr_end
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
StealLigandMover
)
create()
(in
ReplaceRegionMover
)
cdr_end
(in
rosetta.protocols.antibody
)
clone()
(in
StealSideChainsMover
)
create()
(in
BackboneGridSampler
)
cdr_energy()
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
ThreadingMover
)
create()
(in
BundleGridSampler
)
CDR_H3_cter_filter()
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
ResidueFeature
)
create()
(in
FitSimpleHelix
)
CDR_H3_filter()
(in
CDRH3Modeler
)
clone()
(in
SSFeature
)
create()
(in
MakeBundle
)
CDR_H3_filter_legacy_code_with_old_rule()
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
TorsionFeature
)
create()
(in
MakeBundleHelix
)
cdr_has_res_constraints()
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
clone()
(in
AmbiguousMultiConstraint
)
create()
(in
PerturbBundle
)
cdr_landmark_enum_to_string()
(in
AntibodyEnumManager
)
clone()
(in
BindingSiteConstraint
)
create()
(in
PerturbBundleHelix
)
cdr_landmark_is_present()
(in
AntibodyEnumManager
)
clone()
(in
COMCoordinateConstraint
)
create()
(in
BackboneTorsionPerturbation
)
cdr_landmark_string_to_enum()
(in
AntibodyEnumManager
)
clone()
(in
MaxSeqSepConstraintSet
)
create()
(in
BackboneTorsionSampler
)
cdr_name_enum_to_string()
(in
AntibodyEnumManager
)
clone()
(in
SequenceCoupling1BDConstraint
)
create()
(in
CartesianHybridize
)
cdr_name_is_present()
(in
AntibodyEnumManager
)
clone()
(in
SequenceCouplingConstraint
)
create()
(in
CartesianSampler
)
cdr_name_string_to_enum()
(in
AntibodyEnumManager
)
clone()
(in
ContactMap
)
create()
(in
ChunkTrialMover
)
cdr_overhang()
(in
AntibodyDesignModeler
)
clone()
(in
FitBfactorsMover
)
create()
(in
DomainAssembly
)
cdr_region
(in
AntibodyRegionEnum
)
clone()
(in
LoadDensityMapMover
)
create()
(in
FoldTreeHybridize
)
cdr_region
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
RecomputeDensityMapMover
)
create()
(in
HybridizeProtocol
)
cdr_region
(in
rosetta.protocols.antibody
)
clone()
(in
SetCrystWeightMover
)
create()
(in
InsertChunkMover
)
cdr_start
(in
CDRLandmarkEnum
)
clone()
(in
SetRefinementOptionsMover
)
create()
(in
MRMover
)
cdr_start
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
TagPoseWithRefinementStatsMover
)
create()
(in
WeightedFragmentSmoothTrialMover
)
cdr_start
(in
rosetta.protocols.antibody
)
clone()
(in
UpdateSolventMover
)
create()
(in
WeightedFragmentTrialMover
)
CDRCluster
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
CreateAngleConstraint
)
create()
(in
IdealizeMover
)
CDRClusterAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
CreateDistanceConstraint
)
create()
(in
FastaInputter
)
CDRClusterCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
CreateTorsionConstraint
)
create()
(in
Inputter
)
CDRClusterEnum
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DeclareBond
)
create()
(in
PDBInputter
)
CDRClusterEnum_start
(in
rosetta.protocols.antibody.clusters
)
clone()
(in
PeptideStubMover
)
create()
(in
SilentFileInputter
)
CDRClusterEnum_start
(in
CDRClusterEnum
)
clone()
(in
ddGMover
)
create()
(in
BalancedKicMover
)
CDRClusterEnum_start
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
ExposedHydrophobicsFilter
)
create()
(in
KicMover
)
CDRClusterEnum_stop
(in
rosetta.protocols.antibody.clusters
)
clone()
(in
GreedyOptMutationMover
)
create()
(in
AddHydrogen
)
CDRClusterEnum_stop
(in
CDRClusterEnum
)
clone()
(in
ParetoOptMutationMover
)
create()
(in
AddHydrogens
)
CDRClusterEnum_stop
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
PointMutationCalculator
)
create()
(in
CompoundTranslate
)
CDRClusterEnum_total
(in
rosetta.protocols.antibody.clusters
)
clone()
(in
DesignProteinBackboneAroundDNA
)
create()
(in
ComputeLigandRDF
)
CDRClusterEnum_total
(in
CDRClusterEnum
)
clone()
(in
DnaChains
)
create()
(in
FinalMinimizer
)
CDRClusterEnum_total
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DnaInterfaceFinder
)
create()
(in
GrowLigand
)
CDRClusterEnumManager
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DnaInterfaceMinMover
)
create()
(in
HighResDocker
)
CDRClusterEnumManagerAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DnaInterfaceMultiStateDesign
)
create()
(in
InterfaceScoreCalculator
)
CDRClusterEnumManagerCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DnaInterfacePacker
)
create()
(in
LigandDesign
)
CDRClusterFeatures
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
RestrictDesignToProteinDNAInterface
)
create()
(in
MinimizeBackbone
)
CDRClusterFeaturesAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
SeparateDnaFromNonDna
)
create()
(in
MinimizeLigand
)
CDRClusterFeaturesCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
WatsonCrickRotamerCouplings
)
create()
(in
RandomConformerMover
)
CDRClusterFeaturesCreator
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
ConformerSwitchMover
)
create()
(in
RandomConformers
)
CDRClusterFeaturesCreatorAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockMCMCycle
)
create()
(in
RigidSearchMover
)
CDRClusterFeaturesCreatorCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockMCMProtocol
)
create()
(in
Rotate
)
CDRClusterMatcher
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockMinMover
)
create()
(in
Rotates
)
CDRClusterMatcherAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockSetupMover
)
create()
(in
SlideTogether
)
CDRClusterMatcherCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockingEnsemblePrepackProtocol
)
create()
(in
StartFrom
)
CDRClusterSet
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockingHighRes
)
create()
(in
TetherLigand
)
CDRClusterSetAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockingHighResFilter
)
create()
(in
Transform
)
CDRClusterSetCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
DockingHighResLegacy
)
create()
(in
Translate
)
CDRDefinitionEnum
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
DockingInitialPerturbation
)
create()
(in
UnconstrainedTorsionsMover
)
CDRDefinitionEnum_start
(in
rosetta.protocols.antibody
)
clone()
(in
DockingLowRes
)
create()
(in
WriteLigandMolFile
)
CDRDefinitionEnum_start
(in
CDRDefinitionEnum
)
clone()
(in
DockingLowResEnsemble
)
create()
(in
LoopBuildMover
)
CDRDefinitionEnum_start
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
DockingLowResFilter
)
create()
(in
LoopmodelWrapper
)
CDRDefinitionEnum_total
(in
rosetta.protocols.antibody
)
clone()
(in
DockingPrepackProtocol
)
create()
(in
LoopBuilder
)
CDRDefinitionEnum_total
(in
CDRDefinitionEnum
)
clone()
(in
DockingProtocol
)
create()
(in
LoopModeler
)
CDRDefinitionEnum_total
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
DockingSlideIntoContact
)
create()
(in
LoopMover
)
CDRDihedralConstraintMover
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
clone()
(in
EllipsoidalRandomizationMover
)
create()
(in
LoopProtocol
)
CDRDihedralConstraintMoverAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
clone()
(in
FaDockingSlideIntoContact
)
create()
(in
MinimizationRefiner
)
CDRDihedralConstraintMoverCAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
clone()
(in
InterfaceSidechainMinMover
)
create()
(in
RepackingRefiner
)
CDRDihedralConstraintMoverCreator
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
clone()
(in
SidechainMinMover
)
create()
(in
RotamerTrialsRefiner
)
CDRDihedralConstraintMoverCreatorAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
clone()
(in
TemperedDocking
)
create()
(in
LegacyKicSampler
)
CDRDihedralConstraintMoverCreatorCAP
(in
rosetta.protocols.antibody.constraints._protocols_antibody_constraints_
)
clone()
(in
MPDockingMover
)
create()
(in
AcceptanceCheck
)
CDRGraftDesignOptions
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
MPDockingSetupMover
)
create()
(in
LoopFilter
)
CDRGraftDesignOptionsAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
SaneDockingProtocol
)
create()
(in
LoopMoverGroup
)
CDRGraftDesignOptionsCAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
AddAssemblyConstraints
)
create()
(in
PrepareForCentroid
)
CDRGraftDesignOptionsParser
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
AssembleLinkerMover
)
create()
(in
PrepareForFullatom
)
CDRGraftDesignOptionsParserAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
CombineChainsMover
)
create()
(in
FastGapMover
)
CDRGraftDesignOptionsParserCAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
PostDockAssemblyScorer
)
create()
(in
LoopHashDiversifier
)
CDRH3Modeler
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
clone()
(in
BfactorFittingMover
)
create()
(in
LoopHashLibrary
)
CDRH3ModelerAP
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
clone()
(in
DensityMorphingMover
)
create()
(in
LoopHashMoverWrapper
)
CDRH3ModelerCAP
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
clone()
(in
ReportFSC
)
create()
(in
LoopHashRelaxProtocol
)
CDRLandmarkEnum
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
ScaleMapIntensities
)
create()
(in
Mover_LoopHashRefine
)
CDRLandmarkEnum_total
(in
rosetta.protocols.antibody
)
clone()
(in
SetupForDensityScoringMover
)
create()
(in
FoldTreeFromLoops
)
CDRLandmarkEnum_total
(in
CDRLandmarkEnum
)
clone()
(in
AutoCutData
)
create()
(in
CCDLoopClosureMover
)
CDRLandmarkEnum_total
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
ClientMover
)
create()
(in
FASelectSlidingWindowLoopClosure
)
CDRNameEnum
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
CoMTrackerCM
)
create()
(in
SlidingWindowLoopClosure
)
CDRNameEnum_proto_start
(in
rosetta.protocols.antibody
)
clone()
(in
EnvMover
)
create()
(in
WidthFirstSlidingWindowLoopClosure
)
CDRNameEnum_proto_start
(in
CDRNameEnum
)
clone()
(in
ProtectedConformation
)
create()
(in
KinematicMover
)
CDRNameEnum_proto_start
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
ScriptCM
)
create()
(in
KinematicWrapper
)
CDRNameEnum_proto_total
(in
rosetta.protocols.antibody
)
clone()
(in
CutBiasClaim
)
create()
(in
LoopCM
)
CDRNameEnum_proto_total
(in
CDRNameEnum
)
clone()
(in
EnvClaim
)
create()
(in
LoopRefineInnerCycle
)
CDRNameEnum_proto_total
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
JumpClaim
)
create()
(in
LoopRefineInnerCycleContainer
)
CDRNameEnum_start
(in
rosetta.protocols.antibody
)
clone()
(in
TorsionClaim
)
create()
(in
RepackTrial
)
CDRNameEnum_start
(in
CDRNameEnum
)
clone()
(in
VirtResClaim
)
create()
(in
ShearMinCCDTrial
)
CDRNameEnum_start
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
XYZClaim
)
create()
(in
SmallMinCCDTrial
)
CDRNameEnum_total
(in
rosetta.protocols.antibody
)
clone()
(in
MultipleDomainMover
)
create()
(in
MakeRotLibMover
)
CDRNameEnum_total
(in
CDRNameEnum
)
clone()
(in
RNA_DeNovoProtocol
)
create()
(in
MatcherMover
)
CDRNameEnum_total
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
RNA_FragmentMover
)
create()
(in
ExtractSubposeMover
)
CDRSeqDesignOptions
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
RNA_LoopCloser
)
create()
(in
MatDesGreedyOptMutationMover
)
CDRSeqDesignOptionsAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
RNA_Minimizer
)
create()
(in
SchemePlaceMotifsMover
)
CDRSeqDesignOptionsCAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
RNA_Relaxer
)
create()
(in
SymDofMover
)
CDRSeqDesignOptionsParser
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
RNA_SecStructInfo
)
create()
(in
CartesianMD
)
CDRSeqDesignOptionsParserAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
ReportToDB
)
create()
(in
MDBase
)
CDRSeqDesignOptionsParserCAP
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
TrajectoryReportToDB
)
create()
(in
MedalExchangeMover
)
CDRsMinPackMin
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
SetupForFibrilMover
)
create()
(in
MedalMover
)
CDRsMinPackMinAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
CalculatorFilter
)
create()
(in
AddMPLigandMover
)
CDRsMinPackMinCAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
CombinedFilter
)
create()
(in
AddMembraneMover
)
Cell
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
CompoundFilter
)
create()
(in
FlipMover
)
CellAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
ContingentFilter
)
create()
(in
MembranePositionFromTopologyMover
)
CellCAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
FalseFilter
)
create()
(in
RandomPositionRotationMover
)
CEN
(in
rosetta.protocols.frag_picker
)
clone()
(in
Filter
)
create()
(in
RandomPositionTranslationMover
)
CEN
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clone()
(in
IfThenFilter
)
create()
(in
RotationMover
)
CEN
(in
ContactType
)
clone()
(in
MoveBeforeFilter
)
create()
(in
SetMembraneCenterMover
)
CEN
(in
rosetta.protocols.kinmatch
)
clone()
(in
ReplicateFilter
)
create()
(in
SetMembraneNormalMover
)
CEN
(in
rosetta.protocols.kinmatch._protocols_kinmatch_
)
clone()
(in
StochasticFilter
)
create()
(in
SetMembranePositionMover
)
CEN
(in
KRSQueryType
)
clone()
(in
TimeFilter
)
create()
(in
TransformIntoMembraneMover
)
CEN2FULLATOM
(in
IterativeBase
)
clone()
(in
TrueFilter
)
create()
(in
TranslationMover
)
CEN2FULLATOM
(in
IterationStage
)
clone()
(in
BluePrintBDR
)
create()
(in
TranslationRotationMover
)
CEN_ANG
(in
rosetta.protocols.kinmatch
)
clone()
(in
CircularPermutation
)
create()
(in
SymmetricAddMembraneMover
)
CEN_ANG
(in
rosetta.protocols.kinmatch._protocols_kinmatch_
)
clone()
(in
MatchResiduesMover
)
create()
(in
VisualizeEmbeddingMover
)
CEN_ANG
(in
KRSQueryType
)
clone()
(in
NcontactsCalculator
)
create()
(in
VisualizeMembraneMover
)
CEN_AXS
(in
rosetta.protocols.kinmatch
)
clone()
(in
SheetConstraintsRCG
)
create()
(in
ZincHeterodimerMover
)
CEN_AXS
(in
rosetta.protocols.kinmatch._protocols_kinmatch_
)
clone()
(in
CoreDunbrackFilter
)
create()
(in
MotifGraftMover
)
CEN_AXS
(in
KRSQueryType
)
clone()
(in
FragQualFilter
)
create()
(in
MotifDnaPacker
)
CEN_AXS_ORI
(in
rosetta.protocols.kinmatch
)
clone()
(in
HSSTripletFilter
)
create()
(in
CompositionMover
)
CEN_AXS_ORI
(in
rosetta.protocols.kinmatch._protocols_kinmatch_
)
clone()
(in
HelixKinkFilter
)
create()
(in
CycleMover
)
CEN_AXS_ORI
(in
KRSQueryType
)
clone()
(in
HelixPairingFilter
)
create()
(in
CyclicMover
)
cen_dist10_pad()
(in
MembraneData
)
clone()
(in
InterlockingAromaFilter
)
create()
(in
DsspMover
)
cen_dist10_pad_hinv()
(in
MembraneData
)
clone()
(in
NcontactsFilter
)
create()
(in
FilterMover
)
cen_dist10_pad_minus()
(in
MembraneData
)
clone()
(in
ParallelBetaPairingPreferenceFilter
)
create()
(in
FilterReporterMover
)
cen_dist10_pad_plus()
(in
MembraneData
)
clone()
(in
SecondaryStructureCountFilter
)
create()
(in
IfMover
)
cen_dist12_pad()
(in
MembraneData
)
clone()
(in
SecondaryStructureFilter
)
create()
(in
IteratedConvergenceMover
)
cen_dist12_pad_hinv()
(in
MembraneData
)
clone()
(in
SecondaryStructureHasResidueFilter
)
create()
(in
JumpOutMover
)
cen_dist12_pad_minus()
(in
MembraneData
)
clone()
(in
SheetTopologyFilter
)
create()
(in
MCShowMover
)
cen_dist12_pad_plus()
(in
MembraneData
)
clone()
(in
AACompositionEnergy
)
create()
(in
MonteCarloUtil
)
cen_dist5_pad()
(in
MembraneData
)
clone()
(in
SetAACompositionPotential
)
create()
(in
MoveMapMover
)
cen_dist5_pad_hinv()
(in
MembraneData
)
clone()
(in
SetSecStructEnergies
)
create()
(in
Mover
)
cen_dist5_pad_minus()
(in
MembraneData
)
clone()
(in
NatbiasSecondaryStructureEnergy
)
create()
(in
MoverApplyingMover
)
cen_dist5_pad_plus()
(in
MembraneData
)
clone()
(in
HelixPairing
)
create()
(in
MoverContainer
)
cen_dist6_pad()
(in
MembraneData
)
clone()
(in
HelixPairingSet
)
create()
(in
MoverForPoseList
)
cen_dist6_pad_hinv()
(in
MembraneData
)
clone()
(in
SS_Info2
)
create()
(in
NullMover
)
cen_dist6_pad_plus()
(in
MembraneData
)
clone()
(in
Sheet
)
create()
(in
PDBDumpMover
)
cen_dist7_pad()
(in
MembraneData
)
clone()
(in
StrandPairing
)
create()
(in
ProfilerMover
)
cen_dist7_pad_hinv()
(in
MembraneData
)
clone()
(in
StrandPairingSet
)
create()
(in
PyMolMover
)
cen_dist7_pad_minus()
(in
MembraneData
)
clone()
(in
FlexPacker
)
create()
(in
RampingMover
)
cen_dist7_pad_plus()
(in
MembraneData
)
clone()
(in
OtherContextScoreFunction
)
create()
(in
RandomMover
)
Cen_Distance_Func
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FlexPepDockingAbInitio
)
create()
(in
RepeatMover
)
Cen_Distance_FuncAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FlexPepDockingFlags
)
create()
(in
SequenceMover
)
Cen_Distance_FuncCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
FlexPepDockingLowRes
)
create()
(in
StructureRestrictor
)
CEN_DOCK_SCORE
(in
rosetta.core.conformation.symmetry
)
clone()
(in
FlexPepDockingProtocol
)
create()
(in
TrialMover
)
CEN_DOCK_SCORE
(in
rosetta.core.conformation.symmetry._core_conformation_symmetry_
)
clone()
(in
FloppyTailMover
)
create()
(in
VectorPoseMover
)
CEN_DOCK_SCORE
(in
SlideCriteriaType
)
clone()
(in
CombinedTaskOperation
)
create()
(in
WhileMover
)
cen_env_smooth
(in
rosetta
)
clone()
(in
FilterStructs
)
create()
(in
StructAvrgMover
)
cen_env_smooth
(in
ScoreType
)
clone()
(in
FilterStructs_Packstat
)
create()
(in
NcbbDockDesignProtocol
)
cen_env_smooth
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
FilterStructs_TotalCharge
)
create()
(in
OopCreatorMover
)
cen_env_smooth
(in
rosetta.core.scoring
)
clone()
(in
FlxbbDesign
)
create()
(in
OopDockDesignProtocol
)
cen_hb
(in
rosetta
)
clone()
(in
FlxbbDesignPack
)
create()
(in
CartesianNormalModeMover
)
cen_hb
(in
ScoreType
)
clone()
(in
InterlockAroma
)
create()
(in
NormalModeMinimizer
)
cen_hb
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
LayerDesignOperation
)
create()
(in
NormalModeRelaxMover
)
cen_hb
(in
rosetta.core.scoring
)
clone()
(in
Bridge
)
create()
(in
TorsionNormalModeMover
)
CEN_LIST_INFO
(in
CacheableDataType
)
clone()
(in
BuildInstruction
)
create()
(in
FormatStringOutputter
)
CEN_LIST_INFO
(in
Enum
)
clone()
(in
BuildManager
)
create()
(in
Outputter
)
cen_pair_smooth
(in
rosetta
)
clone()
(in
ConnectRight
)
create()
(in
PDBOutputter
)
cen_pair_smooth
(in
ScoreType
)
clone()
(in
CountFromLeft
)
create()
(in
ResFileOutputter
)
cen_pair_smooth
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
GrowLeft
)
create()
(in
SilentFileOutputter
)
cen_pair_smooth
(in
rosetta.core.scoring
)
clone()
(in
GrowRight
)
create()
(in
SetupPoissonBoltzmannPotential
)
cen_rot_cbeta
(in
rosetta
)
clone()
(in
RelativeConnectRight
)
create()
(in
AddChainBreak
)
cen_rot_cbeta
(in
ScoreType
)
clone()
(in
RelativeSequencePosition
)
create()
(in
AddSidechainConstraintsToHotspots
)
cen_rot_cbeta
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
SegmentRebuild
)
create()
(in
BackrubDDMover
)
cen_rot_cbeta
(in
rosetta.core.scoring
)
clone()
(in
SegmentSwap
)
create()
(in
BestHotspotCstMover
)
cen_rot_dun
(in
rosetta
)
clone()
(in
BDR
)
create()
(in
BuildAlaPose
)
cen_rot_dun
(in
ScoreType
)
clone()
(in
VarLengthBuild
)
create()
(in
DesignMinimizeHbonds
)
cen_rot_dun
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
RemodelConstraintGenerator
)
create()
(in
DisulfideMover
)
cen_rot_dun
(in
rosetta.core.scoring
)
clone()
(in
RemodelRotamerLinks
)
create()
(in
DockAndRetrieveSidechains
)
cen_rot_env
(in
rosetta
)
clone()
(in
NonlocalFrags
)
create()
(in
DockWithHotspotMover
)
cen_rot_env
(in
ScoreType
)
clone()
(in
FragmentScoreMap
)
create()
(in
FavorNativeResiduePreCycle
)
cen_rot_env
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
TorsionFragment
)
create()
(in
FavorNonNativeResiduePreCycle
)
cen_rot_env
(in
rosetta.core.scoring
)
clone()
(in
TorsionFragmentMover
)
create()
(in
HotspotDisjointedFoldTreeMover
)
cen_rot_pair
(in
rosetta
)
clone()
(in
GeneralizedKIC
)
create()
(in
HotspotHasherMover
)
cen_rot_pair
(in
ScoreType
)
clone()
(in
GeneralizedKICfilter
)
create()
(in
InterfaceRecapitulationMover
)
cen_rot_pair
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
GeneralizedKICperturber
)
create()
(in
LoopFinder
)
cen_rot_pair
(in
rosetta.core.scoring
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clone()
(in
GeneralizedKICselector
)
create()
(in
LoopLengthChange
)
cen_rot_pair_ang
(in
rosetta
)
clone()
(in
Entity
)
create()
(in
LoopMoverFromCommandLine
)
cen_rot_pair_ang
(in
ScoreType
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clone()
(in
EntityElement
)
create()
(in
LoopOver
)
cen_rot_pair_ang
(in
rosetta.core.scoring._core_scoring_
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clone()
(in
AnchoredGraftMover
)
create()
(in
LoopRemodel
)
cen_rot_pair_ang
(in
rosetta.core.scoring
)
clone()
(in
CCDEndsGraftMover
)
create()
(in
MapHotspot
)
cen_rot_pair_dih
(in
rosetta
)
clone()
(in
GraftMoverBase
)
create()
(in
PatchdockTransform
)
cen_rot_pair_dih
(in
ScoreType
)
clone()
(in
DeleteRegionMover
)
create()
(in
PeptideStapleDesignMover
)
cen_rot_pair_dih
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
InsertPoseIntoPoseMover
)
create()
(in
PlaceOnLoop
)
cen_rot_pair_dih
(in
rosetta.core.scoring
)
clone()
(in
KeepRegionMover
)
create()
(in
PlaceSimultaneouslyMover
)
cen_scorefxn()
(in
LoopRelaxMover
)
clone()
(in
ReplaceRegionMover
)
create()
(in
PlaceStubMover
)
Cend_orient()
(in
SS_Base
)
clone()
(in
BackboneGridSampler
)
create()
(in
PlacementAuctionMover
)
Cend_pos()
(in
SS_Base
)
clone()
(in
BackboneGridSamplerHelper
)
create()
(in
PlacementMinimizationMover
)
cenfilter()
(in
LoopHashDiversifier
)
clone()
(in
BundleGridSampler
)
create()
(in
PrepackMover
)
cenfilter()
(in
LoopHashMoverWrapper
)
clone()
(in
BundleGridSamplerHelper
)
create()
(in
ProteinInterfaceMultiStateDesignMover
)
CenHBEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
FitSimpleHelix
)
create()
(in
RandomMutation
)
CenHBEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
MakeBundle
)
create()
(in
RepackMinimize
)
CenHBEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
MakeBundleHelix
)
create()
(in
SaveAndRetrieveSidechains
)
CenHBEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
PerturbBundle
)
create()
(in
SetAtomTree
)
CenHBEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
PerturbBundleHelix
)
create()
(in
SetTemperatureFactor
)
CenHBEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
PerturbBundleOptions
)
create()
(in
SetupHotspotConstraintsLoopsMover
)
CenHBPotential
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
BundleParameters
)
create()
(in
SetupHotspotConstraintsMover
)
CenHBPotentialAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
BundleParametersSet
)
create()
(in
ShoveResidueMover
)
CenHBPotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
AddSearchPatternRotSetOp
)
create()
(in
SpinMover
)
cenlist_from_pose()
(in
EnvPairPotential
)
clone()
(in
SearchPatternRotSetOp
)
create()
(in
SubroutineMover
)
CenListInfo
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
PlaceSurfaceProbe
)
create()
(in
TaskAwareCsts
)
CenListInfoAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
BackboneTorsionPerturbation
)
create()
(in
TopologyBrokerMover
)
CenListInfoCAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
BackboneTorsionSampler
)
create()
(in
TryRotamers
)
cenpack
(in
rosetta
)
clone()
(in
CartesianHybridize
)
create()
(in
VLB
)
cenpack
(in
ScoreType
)
clone()
(in
CartesianSampler
)
create()
(in
AutoRBMover
)
cenpack
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
ChunkTrialMover
)
create()
(in
FragInsertAndAlignMover
)
cenpack
(in
rosetta.core.scoring
)
clone()
(in
DomainAssembly
)
create()
(in
GaussianRBSegmentMover
)
cenpack_smooth
(in
rosetta
)
clone()
(in
HybridizeProtocol
)
create()
(in
HelicalGaussianMover
)
cenpack_smooth
(in
ScoreType
)
clone()
(in
InsertChunkMover
)
create()
(in
IdealizeHelicesMover
)
cenpack_smooth
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
MRMover
)
create()
(in
MakeStarTopologyMover
)
cenpack_smooth
(in
rosetta.core.scoring
)
clone()
(in
TemplateHistory
)
create()
(in
OptimizeThreadingMover
)
CenPairEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
WeightedFragmentSmoothTrialMover
)
create()
(in
RBSegmentMover
)
CenPairEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
WeightedFragmentTrialMover
)
create()
(in
RBSegmentRelax
)
CenPairEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
IdealizeMover
)
create()
(in
SequenceShiftMover
)
CenPairEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
FragmentLookupFilter
)
create()
(in
StrandTwistingMover
)
CenPairEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
BalancedKicMover
)
create()
(in
AtomCoordinateCstMover
)
CenPairEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
KicMover
)
create()
(in
CentroidRelax
)
cenrot
(in
rosetta.core.pack.dunbrack
)
clone()
(in
AddHydrogen
)
create()
(in
ClassicRelax
)
CenRotDunEnergy
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
AddHydrogens
)
create()
(in
FastRelax
)
CenRotDunEnergyAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
AtomCountFilter
)
create()
(in
LocalRelax
)
CenRotDunEnergyCAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
ChainExistsFilter
)
create()
(in
MiniRelax
)
CenRotDunEnergyCreator
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
CompleteConnectionsFilter
)
create()
(in
RelaxProtocolBase
)
CenRotDunEnergyCreatorAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
CompoundTranslate
)
create()
(in
MPFastRelaxMover
)
CenRotDunEnergyCreatorCAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
ComputeLigandRDF
)
create()
(in
MembraneCenterPerturbationMover
)
CenRotEnvEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
FinalMinimizer
)
create()
(in
MembraneNormalPerturbationMover
)
CenRotEnvEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
GrowLigand
)
create()
(in
MovePoseToMembraneCenterMover
)
CenRotEnvEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
HBondAcceptorFilter
)
create()
(in
RigidBodyDeterministicSpinMover
)
CenRotEnvEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
HBondDonorFilter
)
create()
(in
RigidBodyDofPerturbMover
)
CenRotEnvEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
HeavyAtomFilter
)
create()
(in
RigidBodyDofRandomTransMover
)
CenRotEnvEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
HighResDocker
)
create()
(in
RigidBodyDofRandomizeMover
)
CenRotEnvPairPotential
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
InterfaceScoreCalculator
)
create()
(in
RigidBodyDofSeqPerturbMover
)
CenRotEnvPairPotentialAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
LigandDesign
)
create()
(in
RigidBodyDofSeqRandomizeMover
)
CenRotEnvPairPotentialCAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
MinimizeBackbone
)
create()
(in
RigidBodyDofSeqTransMover
)
CenRotPairEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
MinimizeLigand
)
create()
(in
RigidBodyDofTransMover
)
CenRotPairEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
MolarMassFilter
)
create()
(in
RigidBodyMotionMover
)
CenRotPairEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
MolecularMassFilter
)
create()
(in
RigidBodyMover
)
CenRotPairEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RandomConformerMover
)
create()
(in
RigidBodyPerturbMover
)
CenRotPairEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RandomConformers
)
create()
(in
RigidBodyPerturbNoCenterMover
)
CenRotPairEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RigidSearchMover
)
create()
(in
RigidBodyPerturbRandomJumpMover
)
center
(in
MEM
)
clone()
(in
Rotate
)
create()
(in
RigidBodyRandomizeMover
)
center
(in
rosetta.core.conformation.membrane._core_conformation_membrane_
)
clone()
(in
Rotates
)
create()
(in
RigidBodySpinMover
)
center
(in
rosetta.core.conformation.membrane
)
clone()
(in
SlideTogether
)
create()
(in
RigidBodyTransMover
)
center()
(in
UltraLightResidue
)
clone()
(in
StartFrom
)
create()
(in
RollMover
)
center()
(in
Span
)
clone()
(in
TetherLigand
)
create()
(in
RotateJumpAxisMover
)
center()
(in
NamedStubID
)
clone()
(in
Transform
)
create()
(in
UniformRigidBodyCM
)
center()
(in
StubID
)
clone()
(in
Translate
)
create()
(in
UniformRigidBodyMover
)
center()
(in
Stub
)
clone()
(in
UnconstrainedTorsionsMover
)
create()
(in
UniformSphereTransMover
)
center()
(in
Pose
)
clone()
(in
WriteLigandMolFile
)
create()
(in
WholeBodyRotationMover
)
center()
(in
MembraneEmbed
)
clone()
(in
LoopBuildMover
)
create()
(in
WholeBodyTranslationMover
)
center()
(in
PackingScore
)
clone()
(in
LoopMover_SlidingWindow
)
create()
(in
AdditionalOutputWrapper
)
center()
(in
EmbeddingDef
)
clone()
(in
LoopmodelWrapper
)
create()
(in
MultipleOutputWrapper
)
center()
(in
Interface
)
clone()
(in
LoopBuilder
)
create()
(in
MultiplePoseMover
)
center_all()
(in
DecoySetEvaluation
)
clone()
(in
LoopModeler
)
create()
(in
ParsedProtocol
)
center_of_geom()
(in
rosetta.protocols.sic_dock._protocols_sic_dock_
)
clone()
(in
LoopMover
)
create()
(in
SavePoseMover
)
center_of_mass()
(in
rosetta.core.pose._core_pose_
)
clone()
(in
LoopProtocol
)
create()
(in
RotamerRecoveryMover
)
center_of_mass()
(in
FoldTreeHybridize
)
clone()
(in
MinimizationRefiner
)
create()
(in
CAcstGenerator
)
center_of_mass()
(in
Loops
)
clone()
(in
RepackingRefiner
)
create()
(in
CloseFold
)
center_of_mass()
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
clone()
(in
RotamerTrialsRefiner
)
create()
(in
CoordinateCst
)
center_of_mass()
(in
Tumble
)
clone()
(in
LegacyKicSampler
)
create()
(in
DefineMovableLoops
)
center_structure()
(in
DecoySetEvaluation
)
clone()
(in
AcceptanceCheck
)
create()
(in
GrowPeptides
)
central_atoms_to_score()
(in
MMBondAngleResidueTypeParamSet
)
clone()
(in
LoopFilter
)
create()
(in
SeedFoldTree
)
central_residue()
(in
NeighborsByDistanceCalculator
)
clone()
(in
LoopMoverGroup
)
create()
(in
SeedSetupMover
)
central_residues()
(in
NeighborhoodByDistanceCalculator
)
clone()
(in
PrepareForCentroid
)
create()
(in
SegmentHybridizer
)
centroid()
(in
ImportPoseOptions
)
clone()
(in
PrepareForFullatom
)
create()
(in
SwapSegment
)
centroid_bin_max()
(in
RigidBodyStepWiseSamplerValueRange
)
clone()
(in
FastGapMover
)
create()
(in
EvaluatedTrialMover
)
centroid_bin_min()
(in
RigidBodyStepWiseSamplerValueRange
)
clone()
(in
LoopHashDiversifier
)
create()
(in
AddCavitiesMover
)
centroid_bin_size()
(in
RigidBodyStepWiseSamplerValueRange
)
clone()
(in
LoopHashLibrary
)
create()
(in
AddChainMover
)
centroid_dist()
(in
rosetta.protocols.toolbox.sample_around._protocols_toolbox_sample_around_
)
clone()
(in
LoopHashMoverWrapper
)
create()
(in
AddConstraintsToCurrentConformationMover
)
CENTROID_DISTANCE
(in
rosetta.protocols.stepwise.screener
)
clone()
(in
LoopHashRelaxProtocol
)
create()
(in
AddJobPairData
)
CENTROID_DISTANCE
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
clone()
(in
Mover_LoopHashRefine
)
create()
(in
AlignChainMover
)
CENTROID_DISTANCE
(in
StepWiseScreenerType
)
clone()
(in
WorkUnit_LoopHash
)
create()
(in
BBConRotMover
)
centroid_disulfide_energy
(in
LongRangeEnergyType
)
clone()
(in
FoldTreeFromLoops
)
create()
(in
BBG8T3AMover
)
centroid_disulfide_energy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
CCDLoopClosureMover
)
create()
(in
BBGaussianMover
)
centroid_disulfide_energy
(in
rosetta.core.scoring.methods
)
clone()
(in
FASelectSlidingWindowLoopClosure
)
create()
(in
BackboneMover
)
CENTROID_HA
(in
rosetta
)
clone()
(in
RamaCheck1B
)
create()
(in
BoltzmannRotamerMover
)
CENTROID_HA
(in
rosetta.core.chemical
)
clone()
(in
RamaCheck2B
)
create()
(in
ChainSplitMover
)
CENTROID_HA
(in
rosetta.core.chemical._core_chemical_
)
clone()
(in
RamaCheckBase
)
create()
(in
ChangeAndResetFoldTreeMover
)
CENTROID_HA
(in
VariantType
)
clone()
(in
SlidingWindowLoopClosure
)
create()
(in
ClearConstraintsMover
)
centroid_loop_mover_str()
(in
BDR
)
clone()
(in
WidthFirstSlidingWindowLoopClosure
)
create()
(in
CombinePoseMover
)
centroid_neighbor_graph
(in
rosetta
)
clone()
(in
KinematicMover
)
create()
(in
ConsensusDesignMover
)
centroid_neighbor_graph
(in
ContextGraphType
)
clone()
(in
KinematicWrapper
)
create()
(in
ConstrainToIdealMover
)
centroid_neighbor_graph
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
LoopCM
)
create()
(in
ConstraintSetMover
)
centroid_neighbor_graph
(in
rosetta.core.scoring
)
clone()
(in
LoopMover_Perturb_CCD
)
create()
(in
ContingentAcceptMover
)
centroid_output()
(in
StepWiseProteinModelerOptions
)
clone()
(in
LoopMover_Perturb_KIC
)
create()
(in
CopyDofMover
)
centroid_pose_from_pdb()
(in
rosetta.core.import_pose._core_import_pose_
)
clone()
(in
LoopMover_Perturb_QuickCCD
)
create()
(in
CoupledMover
)
centroid_relax
(in
MinTypeEnum
)
clone()
(in
LoopMover_Perturb_QuickCCD_Moves
)
create()
(in
CutChainMover
)
centroid_relax
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
LoopMover_Refine_Backrub
)
create()
(in
CyclizationMover
)
centroid_relax
(in
rosetta.protocols.antibody.design
)
clone()
(in
LoopMover_Refine_CCD
)
create()
(in
DME_FilterMover
)
centroid_scatter()
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clone()
(in
LoopMover_Refine_KIC
)
create()
(in
DeleteChainsMover
)
centroid_score_diff_cut()
(in
StepWiseProteinModelerOptions
)
clone()
(in
LoopRefineInnerCycle
)
create()
(in
DesignRepackMover
)
centroid_scorefunction()
(in
BDR
)
clone()
(in
LoopRefineInnerCycleContainer
)
create()
(in
DisulfideInsertionMover
)
centroid_scorefxn()
(in
Protocol
)
clone()
(in
RepackTrial
)
create()
(in
DumpPdb
)
centroid_screen()
(in
StepWiseProteinModelerOptions
)
clone()
(in
ShearMinCCDTrial
)
create()
(in
EnergyCutRotamerTrialsMinMover
)
centroid_stage()
(in
LoopModeler
)
clone()
(in
SmallMinCCDTrial
)
create()
(in
EnergyCutRotamerTrialsMover
)
centroid_weights()
(in
StepWiseProteinModelerOptions
)
clone()
(in
LoopsDatabaseDefiner
)
create()
(in
ExtendedPoseMover
)
CentroidDistanceScreener
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
clone()
(in
LoopsDefiner
)
create()
(in
FavorSequenceProfile
)
CentroidDistanceScreenerAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
clone()
(in
LoopsExplicitDefiner
)
create()
(in
FavorSymmetricSequence
)
CentroidDistanceScreenerCAP
(in
rosetta.protocols.stepwise.screener._protocols_stepwise_screener_
)
clone()
(in
LoopsFileDefiner
)
create()
(in
FindConsensusSequence
)
CentroidDisulfideEnergy
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
MakeRotLibMover
)
create()
(in
ForceDisulfidesMover
)
CentroidDisulfideEnergyAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
MatcherMover
)
create()
(in
GenericMonteCarloMover
)
CentroidDisulfideEnergyCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
ClassicMatchAlgorithm
)
create()
(in
GreenPacker
)
CentroidDisulfideEnergyComponents
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
DownstreamAlgorithm
)
create()
(in
LoadPDBMover
)
CentroidDisulfideEnergyComponentsAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
DownstreamBuilder
)
create()
(in
LoadUnboundRotMover
)
CentroidDisulfideEnergyComponentsCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
LigandConformerBuilder
)
create()
(in
MSDMover
)
CentroidDisulfideEnergyContainer
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
RigidLigandBuilder
)
create()
(in
MakePolyXMover
)
CentroidDisulfideEnergyContainerAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
SecondaryMatcherToDownstreamResidue
)
create()
(in
MembraneTopology
)
CentroidDisulfideEnergyContainerCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
SecondaryMatcherToUpstreamResidue
)
create()
(in
MinMover
)
CentroidDisulfideEnergyCreator
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
WriteUpstreamCoordinateKinemage
)
create()
(in
MinPackMover
)
CentroidDisulfideEnergyCreatorAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
ProteinUpstreamBuilder
)
create()
(in
MissingDensityToJumpMover
)
CentroidDisulfideEnergyCreatorCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
UpstreamBuilder
)
create()
(in
ModifyVariantTypeMover
)
CentroidDisulfideNeighborConstIterator
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
BuildingBlockInterfaceOperation
)
create()
(in
MonteCarloRecover
)
CentroidDisulfideNeighborConstIteratorAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
ClashCheckFilter
)
create()
(in
MonteCarloReset
)
CentroidDisulfideNeighborConstIteratorCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
ExtractSubposeMover
)
create()
(in
MonteCarloTest
)
CentroidDisulfideNeighborIterator
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
GetRBDOFValues
)
create()
(in
MutateResidue
)
CentroidDisulfideNeighborIteratorAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
InterfacePackingFilter
)
create()
(in
O2M_MutateMover
)
CentroidDisulfideNeighborIteratorCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
MatDesGreedyOptMutationMover
)
create()
(in
PDBReloadMover
)
CentroidDisulfidePotential
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
MatDesPointMutationCalculator
)
create()
(in
PSSM2BfactorMover
)
CentroidDisulfidePotentialAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
OligomericAverageDegreeFilter
)
create()
(in
PackRotamersMover
)
CentroidDisulfidePotentialCAP
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clone()
(in
SchemePlaceMotifsMover
)
create()
(in
PackRotamersMoverLazy
)
CentroidRelax
(in
rosetta.protocols.relax._protocols_relax_
)
clone()
(in
SymDofMover
)
create()
(in
PeptideStapleMover
)
CentroidRelaxAP
(in
rosetta.protocols.relax._protocols_relax_
)
clone()
(in
SymUnsatHbondFilter
)
create()
(in
PeriodicBoxMover
)
CentroidRelaxCAP
(in
rosetta.protocols.relax._protocols_relax_
)
clone()
(in
CartesianMD
)
create()
(in
ProlineFixMover
)
CentroidRelaxMover
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
clone()
(in
MDBase
)
create()
(in
RandomOmegaFlipMover
)
CentroidRelaxMoverAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
clone()
(in
MedalExchangeMover
)
create()
(in
RandomTorsionMover
)
CentroidRelaxMoverCAP
(in
rosetta.protocols.surface_docking._protocols_surface_docking_
)
clone()
(in
MedalMover
)
create()
(in
RepackSidechainsMover
)
CentroidRotamerSampleData
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
AddMPLigandMover
)
create()
(in
RepeatPropagationMover
)
CentroidRotamerSampleDataAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
AddMembraneMover
)
create()
(in
ReportEffectivePKA
)
CentroidRotamerSampleDataCAP
(in
rosetta.core.pack.dunbrack.cenrot._core_pack_dunbrack_cenrot_
)
clone()
(in
FlipMover
)
create()
(in
RepulsiveOnlyMover
)
CentroidRotNum
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
MembranePositionFromTopologyMover
)
create()
(in
ResetBaselineMover
)
CentroidRotNumAP
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
RandomPositionRotationMover
)
create()
(in
ResidueTypeConstraintMover
)
CentroidRotNumCAP
(in
rosetta.protocols.make_rot_lib._protocols_make_rot_lib_
)
clone()
(in
RandomPositionTranslationMover
)
create()
(in
ReturnSidechainMover
)
CentroidScatter
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clone()
(in
RotationMover
)
create()
(in
RingConformationMover
)
CentroidScatterAP
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clone()
(in
SetMembraneCenterMover
)
create()
(in
RotamerTrialsMinMover
)
CentroidScatterCAP
(in
rosetta.core.scoring.fiber_diffraction._core_scoring_fiber_diffraction_
)
clone()
(in
SetMembraneNormalMover
)
create()
(in
RotamerTrialsMover
)
cenx()
(in
VallResidue
)
clone()
(in
SetMembranePositionMover
)
create()
(in
RotamerizeMover
)
ceny()
(in
VallResidue
)
clone()
(in
TransformIntoMembraneMover
)
create()
(in
SaneMinMover
)
cenz()
(in
VallResidue
)
clone()
(in
TranslationMover
)
create()
(in
ScoreMover
)
CFr
(in
rosetta.protocols.fldsgn.topology
)
clone()
(in
TranslationRotationMover
)
create()
(in
SequenceProfileMover
)
CFr
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
clone()
(in
SymmetricAddMembraneMover
)
create()
(in
SetReturningPackRotamersMover
)
CFr
(in
SheetFoldType
)
clone()
(in
VisualizeEmbeddingMover
)
create()
(in
SetTorsion
)
ch_bond
(in
rosetta
)
clone()
(in
VisualizeMembraneMover
)
create()
(in
ShakeStructureMover
)
ch_bond
(in
ScoreType
)
clone()
(in
ZincHeterodimerMover
)
create()
(in
ShearMover
)
ch_bond
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
MotifGraftMover
)
create()
(in
ShortBackrubMover
)
ch_bond
(in
rosetta.core.scoring
)
clone()
(in
BuildPosition
)
create()
(in
SmallMover
)
ch_bond_bb_bb
(in
rosetta
)
clone()
(in
Motif
)
create()
(in
SuperimposeMover
)
ch_bond_bb_bb
(in
ScoreType
)
clone()
(in
MotifDnaPacker
)
create()
(in
SwitchChainOrderMover
)
ch_bond_bb_bb
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
MotifHit
)
create()
(in
SwitchResidueTypeSetMover
)
ch_bond_bb_bb
(in
rosetta.core.scoring
)
clone()
(in
CompositionMover
)
create()
(in
TailsScoreMover
)
ch_bond_bb_sc
(in
rosetta
)
clone()
(in
CycleMover
)
create()
(in
TaskAwareMinMover
)
ch_bond_bb_sc
(in
ScoreType
)
clone()
(in
CyclicMover
)
create()
(in
TorsionDOFMover
)
ch_bond_bb_sc
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
DsspMover
)
create()
(in
TorsionSetMover
)
ch_bond_bb_sc
(in
rosetta.core.scoring
)
clone()
(in
FilterMover
)
create()
(in
Tumble
)
ch_bond_sc_sc
(in
rosetta
)
clone()
(in
FilterReporterMover
)
create()
(in
UniformRotationMover
)
ch_bond_sc_sc
(in
ScoreType
)
clone()
(in
IfMover
)
create()
(in
UniformTranslationMover
)
ch_bond_sc_sc
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
IteratedConvergenceMover
)
create()
(in
VirtualRootMover
)
ch_bond_sc_sc
(in
rosetta.core.scoring
)
clone()
(in
JumpOutMover
)
create()
(in
ddG
)
CHAIN
(in
HeaderInformation
)
clone()
(in
MCShowMover
)
create()
(in
AsymFoldandDockMoveRbJumpMover
)
CHAIN
(in
CompoundToken
)
clone()
(in
MonteCarlo
)
create()
(in
AsymFoldandDockRbTrialMover
)
chain()
(in
Residue
)
clone()
(in
MonteCarloUtil
)
create()
(in
InitializeByBins
)
chain()
(in
AnnotatedFragData
)
clone()
(in
MoveMapMover
)
create()
(in
PerturbByBins
)
chain()
(in
FragData
)
clone()
(in
Mover
)
create()
(in
ChiralMover
)
chain()
(in
ChainIs
)
clone()
(in
MoverApplyingMover
)
create()
(in
HbsPatcher
)
chain()
(in
ChainIsnt
)
clone()
(in
MoverContainer
)
create()
(in
OopDPuckMinusMover
)
chain()
(in
PDBInfo
)
clone()
(in
MoverForPoseList
)
create()
(in
OopDPuckPlusMover
)
chain()
(in
Pose
)
clone()
(in
NullMover
)
create()
(in
OopMover
)
chain()
(in
PDBLandmark
)
clone()
(in
PDBDumpMover
)
create()
(in
OopPatcher
)
chain()
(in
CDRCluster
)
clone()
(in
ProfilerMover
)
create()
(in
OopPuckMinusMover
)
chain()
(in
VallData
)
clone()
(in
PyMolMover
)
create()
(in
OopPuckPlusMover
)
chain()
(in
StartFrom
)
clone()
(in
RampingMover
)
create()
(in
OopRandomPuckMover
)
chain()
(in
ResidueIndexDescription
)
clone()
(in
RandomMover
)
create()
(in
OopRandomSmallMover
)
chain()
(in
AddSidechainConstraintsToHotspots
)
clone()
(in
RepeatMover
)
create()
(in
RationalMonteCarlo
)
chain()
(in
HotspotDisjointedFoldTreeMover
)
clone()
(in
ReplicaExchangeMC
)
create()
(in
JumpRotamerSidechainMover
)
chain()
(in
AngleToVector
)
clone()
(in
SequenceMover
)
create()
(in
PerturbChiSidechainMover
)
chain()
(in
ExtendedPoseMover
)
clone()
(in
StructureRestrictor
)
create()
(in
PerturbRotamerSidechainMover
)
chain()
(in
PreventChainFromRepackingOperation
)
clone()
(in
TrialMover
)
create()
(in
SetChiMover
)
chain()
(in
RestrictChainToRepackingOperation
)
clone()
(in
VectorPoseMover
)
create()
(in
SidechainMCMover
)
chain()
(in
RestrictIdentitiesAtAlignedPositionsOperation
)
clone()
(in
WhileMover
)
create()
(in
SidechainMover
)
chain()
(in
RestrictToAlignedSegmentsOperation
)
clone()
(in
StructAvrgMover
)
create()
(in
SidechainMoverBase
)
chain()
(in
SelectResiduesWithinChainOperation
)
clone()
(in
WorkUnit_CombinePose
)
create()
(in
DetectSymmetry
)
chain1()
(in
AlaScan
)
clone()
(in
WorkUnit_FragInsert
)
create()
(in
ExtractAsymmetricPoseMover
)
chain2()
(in
AlaScan
)
clone()
(in
WorkUnit_KicCloser
)
create()
(in
ExtractAsymmetricUnitMover
)
chain_begin()
(in
Conformation
)
clone()
(in
WorkUnit_LoopHash
)
create()
(in
FaSymDockingSlideTogether
)
chain_boundaries()
(in
StepWiseBasicWorkingParameters
)
clone()
(in
WorkUnit_MD
)
create()
(in
SetupForSymmetryMover
)
chain_break_screening_general()
(in
RNA_ChainClosureChecker
)
clone()
(in
WorkUnit_NormalMode
)
create()
(in
SetupNCSMover
)
chain_cut()
(in
CutChainMover
)
clone()
(in
WorkUnit_PartialAbinitio
)
create()
(in
SymDockingInitialPerturbation
)
chain_end()
(in
Conformation
)
clone()
(in
WorkUnit_RamaPerturber
)
create()
(in
SymDockingSlideIntoContact
)
chain_endings()
(in
Conformation
)
clone()
(in
WorkUnit_Relax
)
create()
(in
SymEnergyCutRotamerTrialsMover
)
chain_endings()
(in
BinarySilentStruct
)
clone()
(in
WorkUnit_Sampler
)
create()
(in
SymMinMover
)
chain_endings()
(in
ProtectedConformation
)
clone()
(in
WorkUnit_bbGauss
)
create()
(in
SymPackRotamersMover
)
chain_endings_str()
(in
BinarySilentStruct
)
clone()
(in
NcbbDockDesignProtocol
)
create()
(in
SymRotamerTrialsMover
)
chain_gws_string()
(in
rosetta.core.io.carbohydrates._core_io_carbohydrates_
)
clone()
(in
OopCreatorMover
)
create()
(in
SymShakeStructureMover
)
chain_id()
(in
CutChainMover
)
clone()
(in
OopDockDesignProtocol
)
create()
(in
SymmetricRMSMover
)
chain_letters()
(in
ResidueDecompositionByChainCalculator
)
clone()
(in
CartesianNormalModeMover
)
create()
(in
TaskAwareSymMinMover
)
chain_num()
(in
PSSM2BfactorMover
)
clone()
(in
NormalModeMinimizer
)
create()
(in
StepWiseProteinMinimizer
)
chain_num()
(in
SeqprofConsensusOperation
)
clone()
(in
NormalModeRelaxMover
)
create()
(in
StepWiseProteinPoseSetup
)
chain_numbers()
(in
ResidueDecompositionByChainCalculator
)
clone()
(in
TorsionNormalModeMover
)
create()
(in
StepWiseRNA_PoseSetup
)
chain_order()
(in
SwitchChainOrderMover
)
clone()
(in
SetupPoissonBoltzmannPotential
)
create()
(in
StepWiseConnectionSampler
)
chain_pair_pose_prepared()
(in
PeptideDeriverBasicStreamOutputter
)
clone()
(in
PocketConstraint
)
create()
(in
StepWiseMinimizer
)
chain_pair_pose_prepared()
(in
PeptideDeriverMarkdownStreamOutputter
)
clone()
(in
AtomicContactCountFilter
)
create()
(in
StepWiseModeler
)
chain_pair_pose_prepared()
(in
PeptideDeriverOutputter
)
clone()
(in
AverageDegreeFilter
)
create()
(in
SideChainCopier
)
chain_pair_pose_prepared()
(in
PeptideDeriverOutputterContainer
)
clone()
(in
BindingStrainFilter
)
create()
(in
StepWisePacker
)
chain_pair_pose_prepared()
(in
PeptideDeriverPoseOutputter
)
clone()
(in
BoltzmannFilter
)
create()
(in
PolarHydrogenPacker
)
chain_sequence()
(in
Pose
)
clone()
(in
ClashWithTargetFilter
)
create()
(in
PrecomputedLibraryMover
)
chain_strings()
(in
ChainSelector
)
clone()
(in
DesignableResiduesFilter
)
create()
(in
StepWiseProteinBackboneSampler
)
chainbreak
(in
rosetta
)
clone()
(in
DisulfideFilter
)
create()
(in
StepWiseProteinCCD_Closer
)
chainbreak
(in
ScoreType
)
clone()
(in
FNatFilter
)
create()
(in
StepWiseProteinCCD_MultiPoseCloser
)
chainbreak
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
FilterScanFilter
)
create()
(in
StepWiseProteinKIC_LoopBridger
)
chainbreak
(in
rosetta.core.scoring
)
clone()
(in
HbondsToAtomFilter
)
create()
(in
BulgeApplyMover
)
chainbreak()
(in
FragmentBiasAssigner
)
clone()
(in
HbondsToResidueFilter
)
create()
(in
BulgeUnApplyMover
)
chainbreak_bias()
(in
RigidBodyMotionMover
)
clone()
(in
IRmsdFilter
)
create()
(in
RNA_ChainClosureChecker
)
chainbreak_weight()
(in
StepWiseMonteCarloOptions
)
clone()
(in
InterfaceHolesFilter
)
create()
(in
RNA_HelixAssembler
)
ChainbreakEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
LRmsdFilter
)
create()
(in
O2PrimePacker
)
ChainbreakEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RelativeSegmentFilter
)
create()
(in
MultiPhosphateSampler
)
ChainbreakEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RmsdFilter
)
create()
(in
PhosphateMover
)
ChainbreakEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
RmsdSimpleFilter
)
create()
(in
SugarInstantiateMover
)
ChainbreakEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
SSamountFilter
)
create()
(in
SugarVirtualizeMover
)
ChainbreakEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
SequenceRecoveryFilter
)
create()
(in
VirtualSugarJustInTimeInstantiator
)
chainbreaks()
(in
IdealizeMover
)
clone()
(in
SpecificResiduesNearInterfaceFilter
)
create()
(in
VirtualSugarSampler
)
ChainbreakUtil
(in
rosetta.core.util._core_util_
)
clone()
(in
StubScoreFilter
)
create()
(in
VirtualSugarSamplerFromStringList
)
ChainbreakUtilAP
(in
rosetta.core.util._core_util_
)
clone()
(in
StubScoreLoopsFilter
)
create()
(in
StepWiseMonteCarlo
)
ChainbreakUtilCAP
(in
rosetta.core.util._core_util_
)
clone()
(in
Torsion
)
create()
(in
AddMover
)
ChainDirection
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
clone()
(in
AddChainBreak
)
create()
(in
AddOrDeleteMover
)
ChainedSolutionList
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
clone()
(in
AddSidechainConstraintsToHotspots
)
create()
(in
DeleteMover
)
ChainedSolutionListAP
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
clone()
(in
BackrubDDMover
)
create()
(in
FromScratchMover
)
ChainedSolutionListCAP
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
clone()
(in
BestHotspotCstMover
)
create()
(in
ResampleMover
)
ChainExistsFilter
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
BuildAlaPose
)
create()
(in
StepWiseMasterMover
)
ChainExistsFilterAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
DesignMinimizeHbonds
)
create()
(in
RNA_AddDeleteMonteCarlo
)
ChainExistsFilterCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
DisulfideMover
)
create()
(in
RNA_O2PrimeMover
)
ChainExistsFilterCreator
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
DockAndRetrieveSidechains
)
create()
(in
RNA_TorsionMover
)
ChainExistsFilterCreatorAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
DockWithHotspotMover
)
create()
(in
JumpStepWiseSampler
)
ChainExistsFilterCreatorCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
FavorNativeResiduePreCycle
)
create()
(in
MC_Comb
)
ChainGroupDiscriminator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
FavorNonNativeResiduePreCycle
)
create()
(in
MC_OneTorsion
)
ChainGroupDiscriminatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
HotspotDisjointedFoldTreeMover
)
create()
(in
NoOpStepWiseSampler
)
ChainGroupDiscriminatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
HotspotHasherMover
)
create()
(in
StepWiseSamplerAny
)
chainID
(in
rosetta
)
clone()
(in
InterfaceRecapitulationMover
)
create()
(in
StepWiseSamplerComb
)
chainID
(in
LoopConfiguration
)
clone()
(in
LoopFinder
)
create()
(in
StepWiseSamplerOneTorsion
)
chainID
(in
rosetta.protocols.loops._protocols_loops_
)
clone()
(in
LoopLengthChange
)
create()
(in
StepWiseSamplerOneValue
)
chainID
(in
rosetta.protocols.loops
)
clone()
(in
LoopMoverFromCommandLine
)
create()
(in
StepWiseSamplerOneValueComb
)
ChainIs
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
LoopOver
)
create()
(in
StepWiseSamplerSized
)
ChainIsAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
LoopRemodel
)
create()
(in
StepWiseSamplerSizedAny
)
ChainIsCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
MapHotspot
)
create()
(in
StepWiseSamplerSizedComb
)
ChainIsCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PatchdockTransform
)
create()
(in
CopyDofStepWiseSampler
)
ChainIsCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PeptideStapleDesignMover
)
create()
(in
ResidueAlternativeStepWiseSampler
)
ChainIsCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PlaceOnLoop
)
create()
(in
ResidueAlternativeStepWiseSamplerComb
)
ChainIsnt
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PlaceSimultaneouslyMover
)
create()
(in
ResidueListStepWiseSampler
)
ChainIsntAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PlaceStubMover
)
create()
(in
InputStreamStepWiseSampler
)
ChainIsntCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PlacementAuctionMover
)
create()
(in
ProteinBetaAntiParallelStepWiseSampler
)
ChainIsntCreator
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PlacementMinimizationMover
)
create()
(in
ProteinFragmentStepWiseSampler
)
ChainIsntCreatorAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
PrepackMover
)
create()
(in
ProteinMainChainStepWiseSampler
)
ChainIsntCreatorCAP
(in
rosetta.core.pack.task.operation._core_pack_task_operation_
)
clone()
(in
ProteinInterfaceMultiStateDesignMover
)
create()
(in
RigidBodyStepWiseSampler
)
chains()
(in
InterfaceScoreCalculator
)
clone()
(in
RandomMutation
)
create()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
chains()
(in
DeleteChainsMover
)
clone()
(in
RepackMinimize
)
create()
(in
RigidBodyStepWiseSamplerWithResidueList
)
chains_from_termini()
(in
Conformation
)
clone()
(in
SaveAndRetrieveSidechains
)
create()
(in
RNA_ChiStepWiseSampler
)
chains_from_termini()
(in
ProtectedConformation
)
clone()
(in
SetAtomTree
)
create()
(in
RNA_KIC_Sampler
)
chains_in_full_model()
(in
FullModelInfo
)
clone()
(in
SetTemperatureFactor
)
create()
(in
RNA_KinematicCloser
)
chains_in_full_model()
(in
FullModelParameters
)
clone()
(in
SetupHotspotConstraintsLoopsMover
)
create()
(in
RNA_MC_MultiSuite
)
chains_whose_residues_are_separate_chemical_entities()
(in
FileDataOptions
)
clone()
(in
SetupHotspotConstraintsMover
)
create()
(in
RNA_MC_Sugar
)
ChainSelector
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
clone()
(in
ShoveResidueMover
)
create()
(in
RNA_MC_Suite
)
ChainSelectorAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
clone()
(in
SpinMover
)
create()
(in
RNA_NucleosideStepWiseSampler
)
ChainSelectorCAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
clone()
(in
SubroutineMover
)
create()
(in
RNA_SugarStepWiseSampler
)
ChainSelectorCreator
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
clone()
(in
TaskAwareCsts
)
create()
(in
RNA_SuiteStepWiseSampler
)
ChainSelectorCreatorAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
clone()
(in
TopologyBrokerMover
)
create()
(in
StepWiseCSA_JobDistributor
)
ChainSelectorCreatorCAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
clone()
(in
TryRotamers
)
create()
(in
StepWiseJobDistributor
)
ChainSplitMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
VLB
)
create()
(in
StepWiseMonteCarloJobDistributor
)
ChainSplitMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
AutoRBMover
)
create()
(in
CentroidRelaxMover
)
ChainSplitMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
FragInsertAndAlignMover
)
create()
(in
FullatomRelaxMover
)
chainTORS()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
clone()
(in
GaussianRBSegmentMover
)
create()
(in
SurfaceDockingProtocol
)
chainXYZ()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
clone()
(in
HelicalGaussianMover
)
create()
(in
SurfaceOrientMover
)
change_chi_without_replacing_residue()
(in
SidechainMover
)
clone()
(in
IdealizeHelicesMover
)
create()
(in
SymDockBaseProtocol
)
change_chi_without_replacing_residue()
(in
SidechainMoverBase
)
clone()
(in
MakeStarTopologyMover
)
create()
(in
SymDockProtocol
)
change_CoM_to_ligandCoM()
(in
NonPlaidFingerprint
)
clone()
(in
OptimizeThreadingMover
)
create()
(in
SymDockingHiRes
)
change_cys_state()
(in
rosetta.core.conformation._core_conformation_
)
clone()
(in
RBSegmentMover
)
create()
(in
SymDockingLowRes
)
change_espGrid_for_darc()
(in
ElectrostaticpotentialGrid
)
clone()
(in
RBSegmentRelax
)
create()
(in
SymFoldandDockMoveRbJumpMover
)
change_foldtree()
(in
AddChainBreak
)
clone()
(in
SequenceShiftMover
)
create()
(in
SymFoldandDockRbTrialMover
)
change_sheet_id_if_possible()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
StrandTwistingMover
)
create()
(in
SymFoldandDockSlideTrialMover
)
change_volume_move()
(in
PeriodicBoxMover
)
clone()
(in
AtomCoordinateCstMover
)
create()
(in
SymInterfaceSidechainMinMover
)
change_weight()
(in
MonteCarlo
)
clone()
(in
CentroidRelax
)
create()
(in
SymSidechainMinMover
)
ChangeAndResetFoldTreeMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
ClassicRelax
)
create()
(in
MPSymDockMover
)
ChangeAndResetFoldTreeMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
FastRelax
)
create()
(in
DummyClass
)
ChangeAndResetFoldTreeMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
LocalRelax
)
create()
(in
AlignPoseToInvrotTreeMover
)
ChangeAndResetFoldTreeMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
MiniRelax
)
create()
(in
EnzdesCacheableObserver
)
ChangeAndResetFoldTreeMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
RelaxProtocolBase
)
create()
(in
StoreCombinedStoredTasksMover
)
ChangeAndResetFoldTreeMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clone()
(in
WorkUnit_BatchRelax
)
create()
(in
StoreCompoundTaskMover
)
changing_baseline()
(in
DeltaFilter
)
clone()
(in
WorkUnit_BatchRelax_and_PostRescore
)
create()
(in
StoreTaskMover
)
channel()
(in
Tracer
)
clone()
(in
MPFastRelaxMover
)
create()
(in
UnfoldedStateEnergyCalculatorMover
)
char2ss_type()
(in
SSFeature
)
clone()
(in
MembraneCenterPerturbationMover
)
create()
(in
Tag
)
char_msg()
(in
SimulateMPIMessage
)
clone()
(in
MembraneNormalPerturbationMover
)
create_acc_orientation_vector()
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
char_type()
(in
RBResidueRange
)
clone()
(in
MovePoseToMembraneCenterMover
)
create_adduct_combinations()
(in
ResidueTypeSet
)
char_valid_as_torsion_bin()
(in
rosetta.core.conformation._core_conformation_
)
clone()
(in
RigidBodyDeterministicSpinMover
)
create_aligment_id_map_legacy()
(in
rosetta.protocols.stepwise.modeler.align._protocols_stepwise_modeler_align_
)
charge()
(in
Atom
)
clone()
(in
RigidBodyDofPerturbMover
)
create_and_attach_task_factory()
(in
DockTaskFactory
)
charge()
(in
ElecAtom
)
clone()
(in
RigidBodyDofRandomTransMover
)
create_annealer()
(in
AnnealerFactory
)
ChargeCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
clone()
(in
RigidBodyDofRandomizeMover
)
create_atom_tree()
(in
SetAtomTree
)
ChargeCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
clone()
(in
RigidBodyDofSeqPerturbMover
)
create_blank_file()
(in
rosetta.utility.file._utility_file_
)
ChargeCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
clone()
(in
RigidBodyDofSeqRandomizeMover
)
create_bond_length()
(in
rosetta.core.chemical._core_chemical_
)
ChargeChargeFeatures
(in
rosetta.protocols.features._protocols_features_
)
clone()
(in
RigidBodyDofSeqTransMover
)
create_bump_grid_for_bb()
(in
BumpGrid
)
ChargeChargeFeaturesAP
(in
rosetta.protocols.features._protocols_features_
)
clone()
(in
RigidBodyDofTransMover
)
create_cache()
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
ChargeChargeFeaturesCAP
(in
rosetta.protocols.features._protocols_features_
)
clone()
(in
RigidBodyMotionMover
)
create_ClassicFragmentMover()
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
ChargeChargeFeaturesCreator
(in
rosetta.protocols.features._protocols_features_
)
clone()
(in
RigidBodyMover
)
create_command_map()
(in
rosetta.core.pack.task._core_pack_task_
)
ChargeChargeFeaturesCreatorAP
(in
rosetta.protocols.features._protocols_features_
)
clone()
(in
RigidBodyPerturbMover
)
create_comparer()
(in
RRComparerAutomorphicRMSDCreator
)
ChargeChargeFeaturesCreatorCAP
(in
rosetta.protocols.features._protocols_features_
)
clone()
(in
RigidBodyPerturbNoCenterMover
)
create_comparer()
(in
RRComparerChiDiffCreator
)
CHARGED
(in
rosetta
)
clone()
(in
RigidBodyPerturbRandomJumpMover
)
create_comparer()
(in
RRComparerCreator
)
CHARGED
(in
rosetta.core.chemical
)
clone()
(in
RigidBodyRandomizeMover
)
create_comparer()
(in
RRComparerElecDensDiffCreator
)
CHARGED
(in
rosetta.core.chemical._core_chemical_
)
clone()
(in
RigidBodySpinMover
)
create_comparer()
(in
RRComparerRotBinsCreator
)
CHARGED
(in
ResidueProperty
)
clone()
(in
RigidBodyTransMover
)
create_consensus_design_task()
(in
ConsensusDesignMover
)
CharmmPeriodicFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
clone()
(in
RollMover
)
create_constraint()
(in
DunbrackConstraintCreator
)
CharmmPeriodicFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
clone()
(in
RotateJumpAxisMover
)
create_constraint()
(in
AmbiguousConstraintCreator
)
CharmmPeriodicFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
clone()
(in
UniformRigidBodyCM
)
create_constraint()
(in
AmbiguousNMRConstraintCreator
)
chco
(in
atomitem
)
clone()
(in
UniformRigidBodyMover
)
create_constraint()
(in
AmbiguousNMRDistanceConstraintCreator
)
chco
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
clone()
(in
UniformSphereTransMover
)
create_constraint()
(in
AngleConstraintCreator
)
chco
(in
rosetta.core.scoring.rna.chemical_shift
)
clone()
(in
WholeBodyRotationMover
)
create_constraint()
(in
AtomPairConstraintCreator
)
CHEAT_CoM()
(in
FingerprintBase
)
clone()
(in
WholeBodyTranslationMover
)
create_constraint()
(in
BigBinConstraintCreator
)
check()
(in
KClusterElement
)
clone()
(in
AdditionalOutputWrapper
)
create_constraint()
(in
ConstraintCreator
)
check2bsc()
(in
ScoringSecMatchRPE
)
clone()
(in
MultipleOutputWrapper
)
create_constraint()
(in
CoordinateConstraintCreator
)
check_all_ligand_atoms()
(in
rosetta.protocols.ligand_docking.ligand_options._protocols_ligand_docking_ligand_options_
)
clone()
(in
MultiplePoseMover
)
create_constraint()
(in
DihedralConstraintCreator
)
check_all_residues_sampled()
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
clone()
(in
ParsedProtocol
)
create_constraint()
(in
DihedralPairConstraintCreator
)
check_and_correct_sister_atom_based_on_chirality()
(in
rosetta.core.io.pdb._core_io_pdb_
)
clone()
(in
SavePoseMover
)
create_constraint()
(in
FabConstraintCreator
)
check_and_correct_sister_atom_based_on_outgroup()
(in
rosetta.core.io.pdb._core_io_pdb_
)
clone()
(in
RotamerRecoveryMover
)
create_constraint()
(in
KofNConstraintCreator
)
check_and_correct_sister_atoms()
(in
rosetta.core.io.pdb._core_io_pdb_
)
clone()
(in
InterfaceInfo
)
create_constraint()
(in
LocalCoordinateConstraintCreator
)
check_and_create_fragments()
(in
HybridizeProtocol
)
clone()
(in
ResidualDipolarCouplingRigidSegments
)
create_constraint()
(in
MultiConstraintCreator
)
check_and_create_fragments()
(in
SegmentHybridizer
)
clone()
(in
EnsembleEnergy
)
create_constraint()
(in
NamedAngleConstraintCreator
)
check_base_pair()
(in
rosetta.protocols.farna._protocols_farna_
)
clone()
(in
InterchainEnvEnergy
)
create_constraint()
(in
SequenceProfileConstraintCreator
)
check_base_pairs()
(in
RNA_StructureParameters
)
clone()
(in
InterchainPairEnergy
)
create_constraint()
(in
SiteConstraintCreator
)
check_binary_chars()
(in
rosetta.core.io.serialization._core_io_serialization_
)
clone()
(in
ResidualDipolarCouplingEnergyRigidSegments
)
create_constraint()
(in
SiteConstraintResiduesCreator
)
check_binary_unsigned_int()
(in
rosetta.core.io.serialization._core_io_serialization_
)
clone()
(in
SpecialRotamerEnergy
)
create_constraint()
(in
BindingSiteConstraintCreator
)
check_bounds()
(in
SOGFunc
)
clone()
(in
PCS_Energy
)
create_constraint()
(in
NamedAtomPairConstraintCreator
)
check_bounds()
(in
SOGFunc_Impl
)
clone()
(in
PCS_data
)
create_constraint()
(in
SequenceCoupling1BDConstraintCreator
)
check_bounds()
(in
MotifHash
)
clone()
(in
PcsDataCenterManager
)
create_constraint()
(in
SequenceCouplingConstraintCreator
)
check_calculator_exists()
(in
CalculatorFactory
)
clone()
(in
PcsEnergy
)
create_constraint()
(in
PocketConstraintCreator
)
check_can_append()
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
clone()
(in
PCS_Energy_Ts1
)
create_constraints()
(in
ClusterBase
)
check_can_prepend()
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
clone()
(in
PCS_data_Ts1
)
create_context_graph()
(in
ContextGraphFactory
)
check_canonicalness_of_LR()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PCS_Energy_Ts2
)
create_coordinate_constraints()
(in
StepWisePoseAligner
)
check_canonicalness_of_PA()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PCS_data_Ts2
)
create_count_pair_function()
(in
CountPairFactory
)
check_canonicalness_of_parallel_EE()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PCS_Energy_Ts3
)
create_count_pair_function_and_invoke()
(in
CountPairFactory
)
check_cb()
(in
rosetta.protocols.antibody.design._protocols_antibody_design_
)
clone()
(in
PCS_data_Ts3
)
create_cpdata_correspondence_for_rotamer()
(in
rosetta.core.scoring.trie._core_scoring_trie_
)
check_centroid_interaction()
(in
RNA_BaseCentroidChecker
)
clone()
(in
PCS_Energy_Ts4
)
create_cpdata_correspondence_for_rotamerset()
(in
rosetta.core.scoring.trie._core_scoring_trie_
)
check_chain_closable_geometry()
(in
RNA_ChainClosableGeometryChecker
)
clone()
(in
PCS_data_Ts4
)
create_data()
(in
WriteableCacheableDataCreator
)
check_chbonded()
(in
RNA_DMS_Potential
)
clone()
(in
PDDFEnergy
)
create_data()
(in
JumpSampleDataCreator
)
check_clear_for_stacking()
(in
RNA_LowResolutionPotential
)
clone()
(in
CAcstGenerator
)
create_data()
(in
AutoCutDataCreator
)
check_closure()
(in
RNA_LoopCloser
)
clone()
(in
CloseFold
)
create_db()
(in
LoopHashLibrary
)
CHECK_COMM_SIZE
(in
rosetta.basic
)
clone()
(in
CoordinateCst
)
create_dense_pdig_from_rot_to_pack()
(in
DenseIGRepacker
)
CHECK_COMM_SIZE
(in
rosetta.basic._basic_
)
clone()
(in
DefineMovableLoops
)
create_dense_pdig_from_rot_to_pack()
(in
DoubleDenseIGRepacker
)
CHECK_COMM_SIZE
(in
ProfTag
)
clone()
(in
GrowPeptides
)
create_directed_dependency()
(in
BluePrintBDR
)
check_compatibility()
(in
SugarModeling
)
clone()
(in
SeedFoldTree
)
create_directed_dependency()
(in
BuildManager
)
check_data_consistency()
(in
EnzdesLoopInfo
)
clone()
(in
SeedSetupMover
)
create_directed_dependency()
(in
BDR
)
check_deprecated_flags()
(in
rosetta.core.init._core_init_
)
clone()
(in
SegmentHybridizer
)
create_directory()
(in
rosetta.utility.file._utility_file_
)
check_domain_map()
(in
NeighborList
)
clone()
(in
SwapSegment
)
create_directory_recursive()
(in
rosetta.utility.file._utility_file_
)
check_edges_for_atom_info()
(in
FoldTree
)
clone()
(in
AbinitioBaseFilter
)
create_dist_constraints()
(in
DecoySetEvaluation
)
check_extra_minimize_res_are_input()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
clone()
(in
AlaScan
)
create_dist_constraints_median()
(in
DecoySetEvaluation
)
check_fa_dun()
(in
BuildSet
)
clone()
(in
AngleToVector
)
create_don_orientation_vector()
(in
rosetta.core.scoring.hbonds._core_scoring_hbonds_
)
check_features_reporter_dependencies()
(in
ReportToDB
)
clone()
(in
AtomicContactFilter
)
create_empty_map()
(in
FragmentScoreManager
)
check_filters()
(in
AbrelaxApplication
)
clone()
(in
AtomicDistanceFilter
)
create_energy_method()
(in
DunbrackEnergyCreator
)
check_fix_aho_cdr_numbering()
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
AveragePathLengthFilter
)
create_energy_method()
(in
CenRotDunEnergyCreator
)
check_fold_tree()
(in
FoldTree
)
clone()
(in
BuriedUnsatHbondFilter
)
create_energy_method()
(in
HPatchEnergyCreator
)
check_fold_tree_OK()
(in
ChunkSet
)
clone()
(in
COFilter
)
create_energy_method()
(in
SurfaceEnergyCreator
)
check_fold_tree_OK()
(in
RNA_ChunkLibrary
)
clone()
(in
ConservedPosMutationFilter
)
create_energy_method()
(in
CarbonHBondEnergyCreator
)
check_for_base_neighbor()
(in
RNA_LowResolutionPotential
)
clone()
(in
ConstraintScoreCutoffFilter
)
create_energy_method()
(in
ConstraintsEnergyCreator
)
check_for_input_domain()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
clone()
(in
DdGScan
)
create_energy_method()
(in
XtalMLEnergyCreator
)
check_for_messed_up_structure()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clone()
(in
DdgFilter
)
create_energy_method()
(in
FullatomCustomPairDistanceEnergyCreator
)
check_for_parse_error()
(in
ZincSiteFinder
)
clone()
(in
DeltaFilter
)
create_energy_method()
(in
CentroidDisulfideEnergyCreator
)
check_forming_base_pair()
(in
RNA_LowResolutionPotential
)
clone()
(in
DisulfideEntropyFilter
)
create_energy_method()
(in
DisulfideMatchingEnergyCreator
)
check_forward_backward()
(in
RNA_JumpLibrary
)
clone()
(in
DomainInterfaceFilter
)
create_energy_method()
(in
FullatomDisulfideEnergyCreator
)
check_frequency()
(in
MonteCarlo
)
clone()
(in
EnergyPerResidueFilter
)
create_energy_method()
(in
DNAChiEnergyCreator
)
check_full_model_info_OK()
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
clone()
(in
EvaluatedTrialMover
)
create_energy_method()
(in
DNATorsionEnergyCreator
)
check_hairpin()
(in
SS_Killhairpins_Info
)
clone()
(in
ExpiryFilter
)
create_energy_method()
(in
FA_ElecEnergyAroAllCreator
)
check_hbonded()
(in
RNA_DMS_Potential
)
clone()
(in
FileExistFilter
)
create_energy_method()
(in
FA_ElecEnergyAroAroCreator
)
check_heading_direction()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
FileRemoveFilter
)
create_energy_method()
(in
FA_ElecEnergyCreator
)
check_helix_existence()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
GeometryFilter
)
create_energy_method()
(in
FA_GrpElecEnergyCreator
)
check_if_connected_residues_belong_to_regions()
(in
RegionalConnections
)
clone()
(in
HolesFilter
)
create_energy_method()
(in
RNA_FA_ElecEnergyCreator
)
check_if_pose_renumbered_for_clusters()
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
clone()
(in
InterRepeatContactFilter
)
create_energy_method()
(in
ElecDensAllAtomCenEnergyCreator
)
check_if_proton_chi_atom()
(in
rosetta.protocols.stepwise.modeler.polar_hydrogens._protocols_stepwise_modeler_polar_hydrogens_
)
clone()
(in
InterfaceBindingEnergyDensityFilter
)
create_energy_method()
(in
ElecDensCenEnergyCreator
)
check_if_residues_are_Ctermini()
(in
FileDataOptions
)
clone()
(in
InterfaceSasaFilter
)
create_energy_method()
(in
ElecDensEnergyCreator
)
check_if_residues_are_Ntermini()
(in
FileDataOptions
)
clone()
(in
IntraRepeatContactFilter
)
create_energy_method()
(in
FastDensEnergyCreator
)
check_instantiated_O2Prime_hydrogen()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clone()
(in
LeastNativeLike9merFilter
)
create_energy_method()
(in
PattersonCorrEnergyCreator
)
check_internal_hbonds()
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
clone()
(in
MotifScoreFilter
)
create_energy_method()
(in
ElecDensAtomwiseEnergyCreator
)
check_invariants()
(in
Polynomial_1d
)
clone()
(in
MultipleSigmoids
)
create_energy_method()
(in
EtableClassicIntraEnergyCreator
)
check_is_working_res()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clone()
(in
MutationsFilter
)
create_energy_method()
(in
EtableEnergyCreator
)
check_jump_to_next_residue_in_chain()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
clone()
(in
NMerPSSMEnergyFilter
)
create_energy_method()
(in
FiberDiffractionEnergyCreator
)
check_jump_to_previous_residue_in_chain()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
clone()
(in
NMerSVMEnergyFilter
)
create_energy_method()
(in
FiberDiffractionEnergyDensCreator
)
check_kink_helix()
(in
rosetta.protocols.fldsgn.topology._protocols_fldsgn_topology_
)
clone()
(in
NeighborTypeFilter
)
create_energy_method()
(in
ContextDependentGeometricSolEnergyCreator
)
check_lig_code()
(in
ResPairMotif
)
clone()
(in
NetChargeFilter
)
create_energy_method()
(in
ContextIndependentGeometricSolEnergyCreator
)
check_loop_closed()
(in
RNA_ChainClosureChecker
)
clone()
(in
NonSequentialNeighborsFilter
)
create_energy_method()
(in
ExactOccludedHbondSolEnergyCreator
)
check_loop_cycles_are_disjoint()
(in
LoopGraph
)
clone()
(in
Operator
)
create_energy_method()
(in
OccludedHbondSolEnergyCreator
)
check_loop_residues_sensible()
(in
GeneralizedKIC
)
clone()
(in
PDDFScoreFilter
)
create_energy_method()
(in
OccludedHbondSolEnergy_onebodyCreator
)
check_loops()
(in
FragmentSampler
)
clone()
(in
PackStatFilter
)
create_energy_method()
(in
HackAroEnergyCreator
)
check_LR()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PackerNeighborGraphFilter
)
create_energy_method()
(in
HBondEnergyCreator
)
check_matching_atom_names()
(in
StepWisePoseAligner
)
clone()
(in
PoseComment
)
create_energy_method()
(in
DDPscoreCreator
)
check_membrane_fold_tree()
(in
MembraneInfo
)
clone()
(in
PoseInfoFilter
)
create_energy_method()
(in
LoopCloseEnergyCreator
)
check_methods_in_right_order()
(in
ScoreFunction
)
clone()
(in
RGFilter
)
create_energy_method()
(in
FaMPEnvEnergyCreator
)
check_mmt()
(in
TorsionDOFMover
)
clone()
(in
RangeFilter
)
create_energy_method()
(in
FaMPEnvSmoothEnergyCreator
)
check_move_map_against_working_parameters()
(in
rosetta.protocols.stepwise.modeler.movemap._protocols_stepwise_modeler_movemap_
)
clone()
(in
RelativePoseFilter
)
create_energy_method()
(in
FaMPSolvEnergyCreator
)
check_neighbor_ligand_atom()
(in
rosetta.protocols.ligand_docking.ligand_options._protocols_ligand_docking_ligand_options_
)
clone()
(in
RepeatParameterFilter
)
create_energy_method()
(in
MPCbetaEnergyCreator
)
check_overlap()
(in
InsertChunkMover
)
clone()
(in
ReportFilter
)
create_energy_method()
(in
MPEnvEnergyCreator
)
check_overlap()
(in
FilteredSolutions
)
clone()
(in
ResidueBurialFilter
)
create_energy_method()
(in
MPLipoEnergyCreator
)
check_PA()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
ResidueCountFilter
)
create_energy_method()
(in
MPNonHelixPenaltyCreator
)
check_pdb_code()
(in
ResPairMotif
)
clone()
(in
ResidueDistanceFilter
)
create_energy_method()
(in
MPPairEnergyCreator
)
check_pdb_for_mem()
(in
AddMembraneMover
)
clone()
(in
ResidueIEFilter
)
create_energy_method()
(in
MPTMProjPenaltyCreator
)
check_pdb_for_mem()
(in
SymmetricAddMembraneMover
)
clone()
(in
ResidueSetChainEnergyFilter
)
create_energy_method()
(in
MPTerminiPenaltyCreator
)
check_phosphate_contacts_donor()
(in
rosetta.protocols.stepwise.modeler.rna.phosphate._protocols_stepwise_modeler_rna_phosphate_
)
clone()
(in
ResiduesInInterfaceFilter
)
create_energy_method()
(in
BurialEnergyCreator
)
check_pleat()
(in
StrandPairing
)
clone()
(in
RotamerBoltzmannWeight
)
create_energy_method()
(in
CartesianBondedEnergyCreator
)
check_pleat()
(in
StrandPairingSet
)
clone()
(in
SAXSScoreFilter
)
create_energy_method()
(in
CenHBEnergyCreator
)
check_pose()
(in
Sparta
)
clone()
(in
SSMotifFinder
)
create_energy_method()
(in
CenPairEnergyCreator
)
check_pose_tree_compatibility()
(in
InvrotTree
)
clone()
(in
SavePoseConstraintToFileFilter
)
create_energy_method()
(in
CenRotEnvEnergyCreator
)
check_pose_tree_compatibility()
(in
TheozymeInvrotTree
)
clone()
(in
SaveResfileToDiskFilter
)
create_energy_method()
(in
CenRotPairEnergyCreator
)
check_property_overlap()
(in
BinTransitionData
)
clone()
(in
ScoreCutoffFilter
)
create_energy_method()
(in
ChainbreakEnergyCreator
)
check_rama()
(in
ABEGO
)
clone()
(in
ScoreTypeFilter
)
create_energy_method()
(in
ChemicalShiftAnisotropyEnergyCreator
)
check_rama()
(in
ABEGOManager
)
clone()
(in
ShapeComplementarityFilter
)
create_energy_method()
(in
ContactOrderEnergyCreator
)
check_rama()
(in
FilteredSolutions
)
clone()
(in
SheetFilter
)
create_energy_method()
(in
CustomAtomPairEnergyCreator
)
check_rama()
(in
KinematicMover
)
clone()
(in
SidechainRmsdFilter
)
create_energy_method()
(in
D2H_SA_EnergyCreator
)
check_rama()
(in
BackboneMover
)
clone()
(in
Sigmoid
)
create_energy_method()
(in
DNA_BaseEnergyCreator
)
check_rama2()
(in
ABEGO
)
clone()
(in
StemFinder
)
create_energy_method()
(in
DipolarCouplingEnergyCreator
)
check_rama_scores()
(in
CCDLoopClosureMover
)
clone()
(in
SymmetricMotifFilter
)
create_energy_method()
(in
DirectReadoutEnergyCreator
)
check_range()
(in
EmbeddingDef
)
clone()
(in
TaskAwareSASAFilter
)
create_energy_method()
(in
DistanceChainbreakEnergyCreator
)
check_rdat()
(in
RDAT
)
clone()
(in
TaskAwareScoreTypeFilter
)
create_energy_method()
(in
EnergyMethodCreator
)
check_relevant_residues()
(in
FeaturesReporter
)
clone()
(in
TerminusDistanceFilter
)
create_energy_method()
(in
EnvEnergyCreator
)
check_relevant_residues_range()
(in
FeaturesReporter
)
clone()
(in
TotalSasaFilter
)
create_energy_method()
(in
EnvSmoothEnergyCreator
)
check_residentity_overlap()
(in
BinTransitionData
)
clone()
(in
AddCavitiesMover
)
create_energy_method()
(in
Fa_MbenvEnergyCreator
)
check_RMSD()
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
AddChainMover
)
create_energy_method()
(in
Fa_MbsolvEnergyCreator
)
check_sample_sugar_in_full_model_info()
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
clone()
(in
AddConstraintsToCurrentConformationMover
)
create_energy_method()
(in
FreeDOF_EnergyCreator
)
check_score()
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
clone()
(in
AddJobPairData
)
create_energy_method()
(in
GenBornEnergyCreator
)
check_score_function_sanity()
(in
rosetta.core.init._core_init_
)
clone()
(in
AlignChainMover
)
create_energy_method()
(in
GoapEnergyCreator
)
check_scorefxn_has_constraint_terms_if_pose_has_constraints()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
clone()
(in
BBConRotMover
)
create_energy_method()
(in
HybridVDW_EnergyCreator
)
check_screen()
(in
ProteinAtrRepChecker
)
clone()
(in
BBG8T3AMover
)
create_energy_method()
(in
IntermolEnergyCreator
)
check_screen()
(in
RNA_AtrRepChecker
)
clone()
(in
BBGaussianMover
)
create_energy_method()
(in
LK_BallEnergyCreator
)
check_screen()
(in
RNA_ChainClosableGeometryChecker
)
clone()
(in
BackboneMover
)
create_energy_method()
(in
LK_PolarNonPolarEnergyCreator
)
check_screen()
(in
RNA_ChainClosureChecker
)
clone()
(in
BoltzmannRotamerMover
)
create_energy_method()
(in
LK_hackCreator
)
check_screen()
(in
AlignRMSD_Screener
)
clone()
(in
ChainGroupDiscriminator
)
create_energy_method()
(in
LinearChainbreakEnergyCreator
)
check_screen()
(in
AnchorSugarScreener
)
clone()
(in
ChainSplitMover
)
create_energy_method()
(in
MMBondAngleEnergyCreator
)
check_screen()
(in
BaseBinMapUpdater
)
clone()
(in
ChangeAndResetFoldTreeMover
)
create_energy_method()
(in
MMBondLengthEnergyCreator
)
check_screen()
(in
BaseCentroidScreener
)
clone()
(in
ClassicFragmentMover
)
create_energy_method()
(in
MMLJEnergyInterCreator
)
check_screen()
(in
BulgeApplier
)
clone()
(in
ClearConstraintsMover
)
create_energy_method()
(in
MMLJEnergyIntraCreator
)
check_screen()
(in
CentroidDistanceScreener
)
clone()
(in
CombinePoseMover
)
create_energy_method()
(in
MMTorsionEnergyCreator
)
check_screen()
(in
FastForwardToNextResidueAlternative
)
clone()
(in
ConsensusDesignMover
)
create_energy_method()
(in
MembraneCbetaEnergyCreator
)
check_screen()
(in
FastForwardToNextRigidBody
)
clone()
(in
ConstrainToIdealMover
)
create_energy_method()
(in
MembraneCenPairEnergyCreator
)
check_screen()
(in
IntegrationTestBreaker
)
clone()
(in
ConstraintSetMover
)
create_energy_method()
(in
MembraneEnvEnergyCreator
)
check_screen()
(in
O2PrimeScreener
)
clone()
(in
ContingentAcceptMover
)
create_energy_method()
(in
MembraneEnvPenaltiesCreator
)
check_screen()
(in
PackScreener
)
clone()
(in
CopyDofMover
)
create_energy_method()
(in
MembraneEnvSmoothEnergyCreator
)
check_screen()
(in
PartitionContactScreener
)
clone()
(in
CoupledMover
)
create_energy_method()
(in
MembraneLipoCreator
)
check_screen()
(in
PhosphateScreener
)
clone()
(in
CutChainMover
)
create_energy_method()
(in
MissingEnergyCreator
)
check_screen()
(in
PoseSelectionScreener
)
clone()
(in
CyclizationMover
)
create_energy_method()
(in
NMerPSSMEnergyCreator
)
check_screen()
(in
ProteinCCD_ClosureScreener
)
clone()
(in
DME_FilterMover
)
create_energy_method()
(in
NMerRefEnergyCreator
)
check_screen()
(in
RNA_ChainClosableGeometryResidueBasedScreener
)
clone()
(in
DeleteChainsMover
)
create_energy_method()
(in
NMerSVMEnergyCreator
)
check_screen()
(in
RNA_ChainClosableGeometryScreener
)
clone()
(in
DesignRepackMover
)
create_energy_method()
(in
OmegaTetherEnergyCreator
)
check_screen()
(in
RNA_ChainClosableGeometryStubBasedScreener
)
clone()
(in
DisulfideInsertionMover
)
create_energy_method()
(in
OtherPoseEnergyCreator
)
check_screen()
(in
RNA_ChainClosureScreener
)
clone()
(in
DumpPdb
)
create_energy_method()
(in
P_AA_EnergyCreator
)
check_screen()
(in
ResidueContactScreener
)
clone()
(in
EnergyCutRotamerTrialsMinMover
)
create_energy_method()
(in
P_AA_pp_EnergyCreator
)
check_screen()
(in
SampleApplier
)
clone()
(in
EnergyCutRotamerTrialsMover
)
create_energy_method()
(in
PackStatEnergyCreator
)
check_screen()
(in
Scorer
)
clone()
(in
ExtendedPoseMover
)
create_energy_method()
(in
PairEnergyCreator
)
check_screen()
(in
StepWiseResiduePairScreener
)
clone()
(in
FavorSequenceProfile
)
create_energy_method()
(in
PeptideBondEnergyCreator
)
check_screen()
(in
StepWiseScreener
)
clone()
(in
FavorSymmetricSequence
)
create_energy_method()
(in
PoissonBoltzmannEnergyCreator
)
check_screen()
(in
StubApplier
)
clone()
(in
FindConsensusSequence
)
create_energy_method()
(in
ProClosureEnergyCreator
)
check_screen()
(in
StubDistanceScreener
)
clone()
(in
ForceDisulfidesMover
)
create_energy_method()
(in
ProQ_EnergyCreator
)
check_screen()
(in
SugarInstantiator
)
clone()
(in
GenericMonteCarloMover
)
create_energy_method()
(in
RG_Energy_FastCreator
)
check_screen()
(in
TagDefinition
)
clone()
(in
GreenPacker
)
create_energy_method()
(in
RG_LocalEnergyCreator
)
check_screen()
(in
VDW_BinScreener
)
clone()
(in
GroupDiscriminator
)
create_energy_method()
(in
RMS_EnergyCreator
)
check_setup()
(in
AtomTreeMinimizer
)
clone()
(in
LoadPDBMover
)
create_energy_method()
(in
Rama2BOffsetEnergyCreator
)
check_ss()
(in
ClassicFragmentMover
)
clone()
(in
LoadUnboundRotMover
)
create_energy_method()
(in
RamachandranEnergy2BCreator
)
check_ss_lengths()
(in
TorsionFragmentMover
)
clone()
(in
MSDMover
)
create_energy_method()
(in
RamachandranEnergyCreator
)
check_statement_sanity()
(in
rosetta.basic.database._basic_database_
)
clone()
(in
MakePolyXMover
)
create_energy_method()
(in
ReferenceEnergyCreator
)
check_status()
(in
ABEGO_SS_Map
)
clone()
(in
MembraneTopology
)
create_energy_method()
(in
ReferenceEnergyNoncanonicalCreator
)
check_strand_too_closeness()
(in
StrandBundleFeatures
)
clone()
(in
MinMover
)
create_energy_method()
(in
ResidualDipolarCouplingEnergyCreator
)
check_strand_too_closeness()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
MinPackMover
)
create_energy_method()
(in
ResidualDipolarCouplingEnergy_RohlCreator
)
check_sugar_atom()
(in
RNA_DataBackboneEnergy
)
clone()
(in
MissingDensityToJumpMover
)
create_energy_method()
(in
SA_EnergyCreator
)
check_surface_area_leerichards_deriv()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
clone()
(in
ModifyVariantTypeMover
)
create_energy_method()
(in
SecondaryStructureEnergyCreator
)
check_sw_by_dis()
(in
StrandBundleFeatures
)
clone()
(in
MonteCarloRecover
)
create_energy_method()
(in
SequenceDependentRefEnergyCreator
)
check_sw_by_dis()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
MonteCarloReset
)
create_energy_method()
(in
SmoothCenPairEnergyCreator
)
check_tag()
(in
GatherPosesMover
)
clone()
(in
MonteCarloTest
)
create_energy_method()
(in
SmoothEnvEnergyCreator
)
check_tail_residues_sensible()
(in
GeneralizedKIC
)
clone()
(in
MutateResidue
)
create_energy_method()
(in
SuckerEnergyCreator
)
check_that_terminal_res_are_unstacked()
(in
RNA_BaseCentroidChecker
)
clone()
(in
O2M_MutateMover
)
create_energy_method()
(in
SymmetricLigandEnergyCreator
)
check_valid_membrane()
(in
Conformation
)
clone()
(in
PDBReloadMover
)
create_energy_method()
(in
UnfoldedStateEnergyCreator
)
check_validity_and_get_working_res()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clone()
(in
PSSM2BfactorMover
)
create_energy_method()
(in
WaterAdductHBondEnergyCreator
)
check_value()
(in
AtomGeometrySecMatchRPE
)
clone()
(in
PackRotamersMover
)
create_energy_method()
(in
WaterAdductIntraEnergyCreator
)
check_vector()
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
clone()
(in
PackRotamersMoverLazy
)
create_energy_method()
(in
YHHPlanarityEnergyCreator
)
check_whether_hairpin_connects_short_strand()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PeptideStapleMover
)
create_energy_method()
(in
pHEnergyCreator
)
check_whether_same_direction_strands_connect_two_sheets_or_a_loop()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
PeriodicBoxMover
)
create_energy_method()
(in
SugarBackboneEnergyCreator
)
check_whether_sheets_are_connected_with_near_bb_atoms()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
ProlineFixMover
)
create_energy_method()
(in
DFIRE_EnergyCreator
)
check_whether_strand_i_is_in_sheet()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
RandomOmegaFlipMover
)
create_energy_method()
(in
NVscoreCreator
)
check_whether_sw_by_sh_id_still_alive()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
RandomTorsionMover
)
create_energy_method()
(in
OrbitalsScoreCreator
)
check_whether_sw_is_not_connected_with_continuous_atoms()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
RepackSidechainsMover
)
create_energy_method()
(in
HolesEnergyCreator
)
check_whether_this_pdb_should_be_excluded()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
RepeatPropagationMover
)
create_energy_method()
(in
SurfEnergyCreator
)
check_whether_this_sheet_is_too_short()
(in
rosetta.protocols.features.strand_assembly._protocols_features_strand_assembly_
)
clone()
(in
ReportEffectivePKA
)
create_energy_method()
(in
SurfVolEnergyCreator
)
check_working_res()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
clone()
(in
RepulsiveOnlyMover
)
create_energy_method()
(in
RG_Energy_RNACreator
)
checker
(in
rosetta.protocols.stepwise.modeler.protein
)
clone()
(in
ResetBaselineMover
)
create_energy_method()
(in
RNA_BulgeEnergyCreator
)
checker
(in
rosetta.protocols.stepwise.modeler.rna
)
clone()
(in
ResidueTypeConstraintMover
)
create_energy_method()
(in
RNA_FullAtomStackingEnergyCreator
)
checkFormat()
(in
GDB
)
clone()
(in
ReturnSidechainMover
)
create_energy_method()
(in
RNA_FullAtomVDW_BasePhosphateCreator
)
checkpoint
(in
rosetta.protocols
)
clone()
(in
RingConformationMover
)
create_energy_method()
(in
RNA_JR_SuiteEnergyCreator
)
checkpoint()
(in
MembraneAbinitio
)
clone()
(in
RotamerTrialsMinMover
)
create_energy_method()
(in
RNA_LJ_BaseEnergyCreator
)
checkpoint()
(in
CheckPointer
)
clone()
(in
RotamerTrialsMover
)
create_energy_method()
(in
RNA_Mg_EnergyCreator
)
checkpoint_cleanup()
(in
rosetta.protocols.dna._protocols_dna_
)
clone()
(in
RotamerizeMover
)
create_energy_method()
(in
RNA_PairwiseLowResolutionEnergyCreator
)
checkpoint_clear()
(in
BOINCJobDistributor
)
clone()
(in
SaneMinMover
)
create_energy_method()
(in
RNA_SugarCloseEnergyCreator
)
checkpoint_read()
(in
BOINCJobDistributor
)
clone()
(in
ScoreMover
)
create_energy_method()
(in
RNA_SuiteEnergyCreator
)
checkpoint_with_interval()
(in
rosetta.protocols.checkpoint._protocols_checkpoint_
)
clone()
(in
SequenceProfileMover
)
create_energy_method()
(in
RNA_TorsionEnergyCreator
)
checkpoint_write()
(in
BOINCJobDistributor
)
clone()
(in
SetReturningPackRotamersMover
)
create_energy_method()
(in
RNA_VDW_EnergyCreator
)
CheckPointer
(in
rosetta.protocols.checkpoint._protocols_checkpoint_
)
clone()
(in
SetTorsion
)
create_energy_method()
(in
StackElecEnergyCreator
)
CheckPointerAP
(in
rosetta.protocols.checkpoint._protocols_checkpoint_
)
clone()
(in
ShakeStructureMover
)
create_energy_method()
(in
RNA_ChemicalShiftEnergyCreator
)
CheckPointerCAP
(in
rosetta.protocols.checkpoint._protocols_checkpoint_
)
clone()
(in
ShearMover
)
create_energy_method()
(in
RNA_ChemicalMappingEnergyCreator
)
checkpointing_file()
(in
ReportFilter
)
clone()
(in
ShortBackrubMover
)
create_energy_method()
(in
RNA_DataBackboneEnergyCreator
)
chemical
(in
rosetta.core
)
clone()
(in
SmallMover
)
create_energy_method()
(in
FastSAXSEnergyCreator
)
CHEMICAL_MAKE_POSE
(in
rosetta.basic
)
clone()
(in
SuperimposeMover
)
create_energy_method()
(in
SAXSEnergy
)
CHEMICAL_MAKE_POSE
(in
rosetta.basic._basic_
)
clone()
(in
SwitchChainOrderMover
)
create_energy_method()
(in
SAXSEnergyCreator
)
CHEMICAL_MAKE_POSE
(in
ProfTag
)
clone()
(in
SwitchResidueTypeSetMover
)
create_energy_method()
(in
SAXSEnergyCreatorCEN
)
chemical_shift
(in
rosetta.core.scoring.rna
)
clone()
(in
TailsScoreMover
)
create_energy_method()
(in
SAXSEnergyCreatorFA
)
CHEMICAL_SHIFT_ANISOTROPY_DATA
(in
CacheableDataType
)
clone()
(in
TaskAwareMinMover
)
create_energy_method()
(in
symECreator
)
CHEMICAL_SHIFT_ANISOTROPY_DATA
(in
Enum
)
clone()
(in
TorsionDOFMover
)
create_energy_method()
(in
VDW_EnergyCreator
)
ChemicalManager
(in
rosetta.core.chemical._core_chemical_
)
clone()
(in
TorsionSetMover
)
create_energy_method()
(in
AACompositionEnergyCreator
)
ChemicalManagerAP
(in
rosetta.core.chemical._core_chemical_
)
clone()
(in
Tumble
)
create_energy_method()
(in
NatbiasSecondaryStructureEnergyCreator
)
ChemicalManagerCAP
(in
rosetta.core.chemical._core_chemical_
)
clone()
(in
UniformRotationMover
)
create_energy_method()
(in
EnsembleEnergyCreator
)
ChemicalShiftAnisotropy
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
UniformTranslationMover
)
create_energy_method()
(in
InterchainEnvEnergyCreator
)
ChemicalShiftAnisotropyAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
UserDefinedGroupDiscriminator
)
create_energy_method()
(in
InterchainPairEnergyCreator
)
ChemicalShiftAnisotropyCAP
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
VirtualRootMover
)
create_energy_method()
(in
ResidualDipolarCouplingEnergyRigidSegmentsCreator
)
ChemicalShiftAnisotropyEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
ddG
)
create_energy_method()
(in
SpecialRotamerEnergyCreator
)
ChemicalShiftAnisotropyEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
AsymFoldandDockMoveRbJumpMover
)
create_energy_method()
(in
PseudocontactShiftEnergyCreator
)
ChemicalShiftAnisotropyEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
AsymFoldandDockRbTrialMover
)
create_energy_method()
(in
PcsEnergyCreator
)
ChemicalShiftAnisotropyEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
InitializeByBins
)
create_energy_method()
(in
PseudocontactShiftEnergyCreator_Ts1
)
ChemicalShiftAnisotropyEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
PerturbByBins
)
create_energy_method()
(in
PseudocontactShiftEnergyCreator_Ts2
)
ChemicalShiftAnisotropyEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clone()
(in
ChiralMover
)
create_energy_method()
(in
PseudocontactShiftEnergyCreator_Ts3
)
ChemicalShiftData
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
clone()
(in
HbsPatcher
)
create_energy_method()
(in
PseudocontactShiftEnergyCreator_Ts4
)
ChemicalShiftDataAP
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
clone()
(in
OopDPuckMinusMover
)
create_energy_method()
(in
PDDFEnergy
)
ChemicalShiftDataCAP
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
clone()
(in
OopDPuckPlusMover
)
create_energy_method()
(in
PDDFEnergyCreator
)
ChemicalShiftEvaluator
(in
rosetta.protocols.sparta._protocols_sparta_
)
clone()
(in
OopMover
)
create_entity_resfile_contents()
(in
rosetta.protocols.pack_daemon._protocols_pack_daemon_
)
ChemicalShiftEvaluatorAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
clone()
(in
OopPatcher
)
create_euler_rotation()
(in
rosetta.protocols.toolbox.rigid_body._protocols_toolbox_rigid_body_
)
ChemicalShiftEvaluatorCAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
clone()
(in
OopPuckMinusMover
)
create_ExactSHOEnergy_from_cmdline()
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
ChemicalShiftEvaluatorCreator
(in
rosetta.protocols.sparta._protocols_sparta_
)
clone()
(in
OopPuckPlusMover
)
create_exgs()
(in
MatchConstraintFileInfo
)
ChemicalShiftEvaluatorCreatorAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
clone()
(in
OopRandomPuckMover
)
create_expression_tree()
(in
ExpressionCreator
)
ChemicalShiftEvaluatorCreatorCAP
(in
rosetta.protocols.sparta._protocols_sparta_
)
clone()
(in
OopRandomSmallMover
)
create_extra_output()
(in
rosetta.protocols.floppy_tail._protocols_floppy_tail_
)
ChemicalShiftScoringScheme
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
RationalMonteCarlo
)
create_fa_dunbrack_libraries()
(in
RotamerLibrary
)
ChemicalShiftScoringSchemeAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
JumpRotamerSidechainMover
)
create_fallback_configuration()
(in
FallbackConfigurationCreator
)
ChemicalShiftScoringSchemeCAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
PerturbChiSidechainMover
)
create_fallback_configuration()
(in
FallbackConfigurationFactory
)
ChemicalShiftSequence
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
PerturbRotamerSidechainMover
)
create_fallback_configuration()
(in
NativeFallbackConfigurationCreator
)
ChemicalShiftSequenceAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
SetChiMover
)
create_fallback_configuration()
(in
LoopsFileFallbackConfigurationCreator
)
ChemicalShiftSequenceCAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
SidechainMCMover
)
create_fallback_configuration()
(in
SurfaceVectorFallbackConfigurationCreator
)
ChemicalShiftSequenceCreator
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
SidechainMover
)
create_faster_ig_from_rot_to_pack()
(in
FASTER_IG_Repacker
)
ChemicalShiftSequenceCreatorAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
SidechainMoverBase
)
create_features_reporter()
(in
AntibodyFeaturesCreator
)
ChemicalShiftSequenceCreatorCAP
(in
rosetta.core.sequence._core_sequence_
)
clone()
(in
DetectSymmetry
)
create_features_reporter()
(in
CDRClusterFeaturesCreator
)
CHI
(in
rosetta
)
clone()
(in
ExtractAsymmetricPoseMover
)
create_features_reporter()
(in
AtomAtomPairFeaturesCreator
)
CHI
(in
rosetta.core.chemical.rna
)
clone()
(in
ExtractAsymmetricUnitMover
)
create_features_reporter()
(in
AtomInResidueAtomInResiduePairFeaturesCreator
)
CHI
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
clone()
(in
FaSymDockingSlideTogether
)
create_features_reporter()
(in
AtomTypesFeaturesCreator
)
CHI
(in
RNA_Torsion
)
clone()
(in
NCSResMapping
)
create_features_reporter()
(in
BetaTurnDetectionFeaturesCreator
)
CHI
(in
rosetta.core.id
)
clone()
(in
SetupForSymmetryMover
)
create_features_reporter()
(in
ChargeChargeFeaturesCreator
)
CHI
(in
rosetta.core.id._core_id_
)
clone()
(in
SetupNCSMover
)
create_features_reporter()
(in
DdGFeaturesCreator
)
CHI
(in
TorsionType
)
clone()
(in
SymDockingInitialPerturbation
)
create_features_reporter()
(in
FeaturesReporterCreator
)
chi()
(in
Residue
)
clone()
(in
SymDockingSlideIntoContact
)
create_features_reporter()
(in
GeometricSolvationFeaturesCreator
)
chi()
(in
DecoyStruct
)
clone()
(in
SymEnergyCutRotamerTrialsMover
)
create_features_reporter()
(in
HBondFeaturesCreator
)
chi()
(in
RNA_SilentStruct
)
clone()
(in
SymMinMover
)
create_features_reporter()
(in
HBondParameterFeaturesCreator
)
chi()
(in
RotamerExplosion
)
clone()
(in
SymPackRotamersMover
)
create_features_reporter()
(in
HelixCapFeaturesCreator
)
chi()
(in
Pose
)
clone()
(in
SymRotamerTrialsMover
)
create_features_reporter()
(in
InterfaceFeaturesCreator
)
chi()
(in
DNABase
)
clone()
(in
SymShakeStructureMover
)
create_features_reporter()
(in
JobDataFeaturesCreator
)
chi()
(in
DnaInterfaceMinMover
)
clone()
(in
SymmetricRMSMover
)
create_features_reporter()
(in
LoopAnchorFeaturesCreator
)
chi()
(in
PNatRotOptERotamerData
)
clone()
(in
TaskAwareSymMinMover
)
create_features_reporter()
(in
OrbitalsFeaturesCreator
)
chi()
(in
TaskAwareMinMover
)
clone()
(in
StepWiseProteinMinimizer
)
create_features_reporter()
(in
PairFeaturesCreator
)
chi()
(in
SetupNCSMover
)
clone()
(in
StepWiseProteinPoseSetup
)
create_features_reporter()
(in
PdbDataFeaturesCreator
)
CHI1
(in
rosetta
)
clone()
(in
StepWiseRNA_PoseSetup
)
create_features_reporter()
(in
PoseCommentsFeaturesCreator
)
CHI1
(in
rosetta.core.scoring
)
clone()
(in
StepWiseConnectionSampler
)
create_features_reporter()
(in
PoseConformationFeaturesCreator
)
CHI1
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
StepWiseMinimizer
)
create_features_reporter()
(in
ProteinBackboneAtomAtomPairFeaturesCreator
)
CHI1
(in
ProteinTorsion
)
clone()
(in
StepWiseModeler
)
create_features_reporter()
(in
ProteinBackboneTorsionAngleFeaturesCreator
)
chi1()
(in
ResPairMotif
)
clone()
(in
StepWiseBasicModelerOptions
)
create_features_reporter()
(in
ProteinBondGeometryFeaturesCreator
)
chi1()
(in
Xfres
)
clone()
(in
StepWiseModelerOptions
)
create_features_reporter()
(in
ProteinRMSDFeaturesCreator
)
chi11()
(in
ResPairMotif
)
clone()
(in
StepWiseProteinModelerOptions
)
create_features_reporter()
(in
ProteinRMSDNoSuperpositionFeaturesCreator
)
chi12()
(in
ResPairMotif
)
clone()
(in
StepWiseRNA_ModelerOptions
)
create_features_reporter()
(in
ProteinResidueConformationFeaturesCreator
)
chi13()
(in
ResPairMotif
)
clone()
(in
SideChainCopier
)
create_features_reporter()
(in
RadiusOfGyrationFeaturesCreator
)
chi14()
(in
ResPairMotif
)
clone()
(in
StepWisePacker
)
create_features_reporter()
(in
ResidueBurialFeaturesCreator
)
chi1_torsion_atom()
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
clone()
(in
PolarHydrogenPacker
)
create_features_reporter()
(in
ResidueConformationFeaturesCreator
)
chi1_torsion_atom_index()
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
clone()
(in
PrecomputedLibraryMover
)
create_features_reporter()
(in
ResidueFeaturesCreator
)
CHI2
(in
rosetta
)
clone()
(in
StepWiseProteinBackboneSampler
)
create_features_reporter()
(in
ResidueGridScoresFeaturesCreator
)
CHI2
(in
rosetta.core.scoring
)
clone()
(in
StepWiseProteinCCD_Closer
)
create_features_reporter()
(in
ResidueScoresFeaturesCreator
)
CHI2
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
StepWiseProteinCCD_MultiPoseCloser
)
create_features_reporter()
(in
ResidueSecondaryStructureFeaturesCreator
)
CHI2
(in
ProteinTorsion
)
clone()
(in
StepWiseProteinKIC_LoopBridger
)
create_features_reporter()
(in
ResidueTotalScoresFeaturesCreator
)
chi2()
(in
ResPairMotif
)
clone()
(in
BulgeApplyMover
)
create_features_reporter()
(in
ResidueTypesFeaturesCreator
)
chi2()
(in
Xfres
)
clone()
(in
BulgeUnApplyMover
)
create_features_reporter()
(in
RotamerBoltzmannWeightFeaturesCreator
)
chi21()
(in
ResPairMotif
)
clone()
(in
RNA_ChainClosureChecker
)
create_features_reporter()
(in
RotamerFeaturesCreator
)
chi22()
(in
ResPairMotif
)
clone()
(in
RNA_HelixAssembler
)
create_features_reporter()
(in
RotamerRecoveryFeaturesCreator
)
chi23()
(in
ResPairMotif
)
clone()
(in
O2PrimePacker
)
create_features_reporter()
(in
RuntimeFeaturesCreator
)
chi24()
(in
ResPairMotif
)
clone()
(in
MultiPhosphateSampler
)
create_features_reporter()
(in
SaltBridgeFeaturesCreator
)
chi2max()
(in
LimitAromaChi2Operation
)
clone()
(in
PhosphateMover
)
create_features_reporter()
(in
ScoreFunctionFeaturesCreator
)
chi2max()
(in
LimitAromaChi2_RotamerSetOperation
)
clone()
(in
SugarInstantiateMover
)
create_features_reporter()
(in
ScoreTypeFeaturesCreator
)
chi2min()
(in
LimitAromaChi2Operation
)
clone()
(in
SugarVirtualizeMover
)
create_features_reporter()
(in
ScreeningFeaturesCreator
)
chi2min()
(in
LimitAromaChi2_RotamerSetOperation
)
clone()
(in
VirtualSugarJustInTimeInstantiator
)
create_features_reporter()
(in
SecondaryStructureSegmentFeaturesCreator
)
CHI3
(in
rosetta
)
clone()
(in
VirtualSugarSampler
)
create_features_reporter()
(in
SmotifFeaturesCreator
)
CHI3
(in
rosetta.core.scoring
)
clone()
(in
VirtualSugarSamplerFromStringList
)
create_features_reporter()
(in
StructureFeaturesCreator
)
CHI3
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
StepWiseMonteCarlo
)
create_features_reporter()
(in
StructureScoresFeaturesCreator
)
CHI3
(in
ProteinTorsion
)
clone()
(in
AddMover
)
create_features_reporter()
(in
TaskOperationFeaturesCreator
)
chi3()
(in
Xfres
)
clone()
(in
AddOrDeleteMover
)
create_features_reporter()
(in
TotalScoreFeaturesCreator
)
CHI4
(in
rosetta
)
clone()
(in
DeleteMover
)
create_features_reporter()
(in
TrajectoryMapFeaturesCreator
)
CHI4
(in
rosetta.core.scoring
)
clone()
(in
FromScratchMover
)
create_features_reporter()
(in
UnrecognizedAtomFeaturesCreator
)
CHI4
(in
rosetta.core.scoring._core_scoring_
)
clone()
(in
ResampleMover
)
create_features_reporter()
(in
WaterFeaturesCreator
)
CHI4
(in
ProteinTorsion
)
clone()
(in
StepWiseMasterMover
)
create_features_reporter()
(in
ConcurrencyTestCreator
)
chi4()
(in
Xfres
)
clone()
(in
StepWiseMoveSelector
)
create_features_reporter()
(in
HelixBundleFeaturesCreator
)
chi_2_proton_chi()
(in
ResidueType
)
clone()
(in
StepWiseMonteCarloOptions
)
create_features_reporter()
(in
SandwichFeaturesCreator
)
chi_atom_vds()
(in
ResidueType
)
clone()
(in
RNA_AddDeleteMonteCarlo
)
create_features_reporter()
(in
StrandBundleFeaturesCreator
)
chi_atoms()
(in
ResidueType
)
clone()
(in
RNA_O2PrimeMover
)
create_filter()
(in
PeptideDeriverFilterCreator
)
chi_atoms()
(in
Residue
)
clone()
(in
RNA_TorsionMover
)
create_filter()
(in
ExposedHydrophobicsFilterCreator
)
chi_clones()
(in
SymmetryInfo
)
clone()
(in
StepWiseBasicOptions
)
create_filter()
(in
CalculatorFilterCreator
)
chi_dev()
(in
Align_RotamerEvaluator
)
clone()
(in
JumpStepWiseSampler
)
create_filter()
(in
CombinedFilterCreator
)
chi_follows()
(in
SymmetryInfo
)
clone()
(in
MC_Comb
)
create_filter()
(in
CompoundFilterCreator
)
chi_is_independent()
(in
SymmetryInfo
)
clone()
(in
MC_OneTorsion
)
create_filter()
(in
ContingentFilterCreator
)
chi_is_nonrotameric()
(in
DunbrackRotamerSampleData
)
clone()
(in
NoOpStepWiseSampler
)
create_filter()
(in
FalseFilterCreator
)
chi_mean()
(in
DunbrackRotamerSampleData
)
clone()
(in
StepWiseSamplerAny
)
create_filter()
(in
FilterCreator
)
chi_north_anti()
(in
RNA_FittedTorsionInfo
)
clone()
(in
StepWiseSamplerComb
)
create_filter()
(in
IfThenFilterCreator
)
chi_north_syn()
(in
RNA_FittedTorsionInfo
)
clone()
(in
StepWiseSamplerOneTorsion
)
create_filter()
(in
MoveBeforeFilterCreator
)
chi_number_pseudoalpha()
(in
RNA_ResidueType
)
clone()
(in
StepWiseSamplerOneValue
)
create_filter()
(in
ReplicateFilterCreator
)
chi_number_pseudobeta()
(in
RNA_ResidueType
)
clone()
(in
StepWiseSamplerOneValueComb
)
create_filter()
(in
StochasticFilterCreator
)
chi_number_pseudoepsilon()
(in
RNA_ResidueType
)
clone()
(in
StepWiseSamplerSized
)
create_filter()
(in
TimeFilterCreator
)
chi_number_pseudogamma()
(in
RNA_ResidueType
)
clone()
(in
StepWiseSamplerSizedAny
)
create_filter()
(in
TrueFilterCreator
)
chi_number_pseudozeta()
(in
RNA_ResidueType
)
clone()
(in
StepWiseSamplerSizedComb
)
create_filter()
(in
CoreDunbrackFilterCreator
)
chi_poly_lookup()
(in
HBondDatabase
)
clone()
(in
CopyDofStepWiseSampler
)
create_filter()
(in
FragQualFilterCreator
)
chi_probability()
(in
DunbrackRotamerSampleData
)
clone()
(in
ResidueAlternativeStepWiseSampler
)
create_filter()
(in
HSSTripletFilterCreator
)
chi_rmsd()
(in
MotifHit
)
clone()
(in
ResidueAlternativeStepWiseSamplerComb
)
create_filter()
(in
HelixKinkFilterCreator
)
chi_rotamers()
(in
ResidueType
)
clone()
(in
ResidueListStepWiseSampler
)
create_filter()
(in
HelixPairingFilterCreator
)
chi_rotamers()
(in
Residue
)
clone()
(in
InputStreamStepWiseSampler
)
create_filter()
(in
InterlockingAromaFilterCreator
)
chi_sample()
(in
FullChiSampleSet
)
clone()
(in
ProteinBetaAntiParallelStepWiseSampler
)
create_filter()
(in
NcontactsFilterCreator
)
chi_samples()
(in
FullChiSampleSet
)
clone()
(in
ProteinFragmentStepWiseSampler
)
create_filter()
(in
ParallelBetaPairingPreferenceFilterCreator
)
chi_sd()
(in
DunbrackRotamerSampleData
)
clone()
(in
ProteinMainChainStepWiseSampler
)
create_filter()
(in
SecondaryStructureCountFilterCreator
)
chi_south_anti()
(in
RNA_FittedTorsionInfo
)
clone()
(in
RigidBodyStepWiseSampler
)
create_filter()
(in
SecondaryStructureFilterCreator
)
chi_south_syn()
(in
RNA_FittedTorsionInfo
)
clone()
(in
RigidBodyStepWiseSamplerWithResidueAlternatives
)
create_filter()
(in
SecondaryStructureHasResidueFilterCreator
)
chi_torsions()
(in
RNA_SilentStruct
)
clone()
(in
RigidBodyStepWiseSamplerWithResidueList
)
create_filter()
(in
SheetTopologyFilterCreator
)
chi_xx()
(in
PCS_tensor
)
clone()
(in
RNA_ChiStepWiseSampler
)
create_filter()
(in
FragmentLookupFilterCreator
)
chi_xx()
(in
PCS_tensor_Ts1
)
clone()
(in
RNA_KIC_Sampler
)
create_filter()
(in
AtomCountFilterCreator
)
chi_xx()
(in
PCS_tensor_Ts2
)
clone()
(in
RNA_KinematicCloser
)
create_filter()
(in
ChainExistsFilterCreator
)
chi_xx()
(in
PCS_tensor_Ts3
)
clone()
(in
RNA_MC_MultiSuite
)
create_filter()
(in
CompleteConnectionsFilterCreator
)
chi_xx()
(in
PCS_tensor_Ts4
)
clone()
(in
RNA_MC_Sugar
)
create_filter()
(in
HBondAcceptorFilterCreator
)
chi_xy()
(in
PCS_tensor
)
clone()
(in
RNA_MC_Suite
)
create_filter()
(in
HBondDonorFilterCreator
)
chi_xy()
(in
PCS_tensor_Ts1
)
clone()
(in
RNA_NucleosideStepWiseSampler
)
create_filter()
(in
HeavyAtomFilterCreator
)
chi_xy()
(in
PCS_tensor_Ts2
)
clone()
(in
RNA_SugarStepWiseSampler
)
create_filter()
(in
MolarMassFilterCreator
)
chi_xy()
(in
PCS_tensor_Ts3
)
clone()
(in
RNA_SuiteStepWiseSampler
)
create_filter()
(in
MolecularMassFilterCreator
)
chi_xy()
(in
PCS_tensor_Ts4
)
clone()
(in
StepWiseCSA_JobDistributor
)
create_filter()
(in
ClashCheckFilterCreator
)
chi_xz()
(in
PCS_tensor
)
clone()
(in
StepWiseJobDistributor
)
create_filter()
(in
GetRBDOFValuesCreator
)
chi_xz()
(in
PCS_tensor_Ts1
)
clone()
(in
StepWiseMonteCarloJobDistributor
)
create_filter()
(in
InterfacePackingFilterCreator
)
chi_xz()
(in
PCS_tensor_Ts2
)
clone()
(in
CentroidRelaxMover
)
create_filter()
(in
OligomericAverageDegreeFilterCreator
)
chi_xz()
(in
PCS_tensor_Ts3
)
clone()
(in
FullatomRelaxMover
)
create_filter()
(in
SymUnsatHbondFilterCreator
)
chi_xz()
(in
PCS_tensor_Ts4
)
clone()
(in
SurfaceDockingProtocol
)
create_filter()
(in
AtomicContactCountFilterCreator
)
chi_yy()
(in
PCS_tensor
)
clone()
(in
SurfaceOrientMover
)
create_filter()
(in
AverageDegreeFilterCreator
)
chi_yy()
(in
PCS_tensor_Ts1
)
clone()
(in
SurfaceParameters
)
create_filter()
(in
BindingStrainFilterCreator
)
chi_yy()
(in
PCS_tensor_Ts2
)
clone()
(in
SymDockBaseProtocol
)
create_filter()
(in
BoltzmannFilterCreator
)
chi_yy()
(in
PCS_tensor_Ts3
)
clone()
(in
SymDockProtocol
)
create_filter()
(in
ClashWithTargetFilterCreator
)
chi_yy()
(in
PCS_tensor_Ts4
)
clone()
(in
SymDockingHiRes
)
create_filter()
(in
DesignableResiduesFilterCreator
)
chi_yz()
(in
PCS_tensor
)
clone()
(in
SymDockingLowRes
)
create_filter()
(in
DisulfideFilterCreator
)
chi_yz()
(in
PCS_tensor_Ts1
)
clone()
(in
SymFoldandDockMoveRbJumpMover
)
create_filter()
(in
FNatFilterCreator
)
chi_yz()
(in
PCS_tensor_Ts2
)
clone()
(in
SymFoldandDockRbTrialMover
)
create_filter()
(in
FilterScanFilterCreator
)
chi_yz()
(in
PCS_tensor_Ts3
)
clone()
(in
SymFoldandDockSlideTrialMover
)
create_filter()
(in
HbondsToAtomFilterCreator
)
chi_yz()
(in
PCS_tensor_Ts4
)
clone()
(in
SymInterfaceSidechainMinMover
)
create_filter()
(in
HbondsToResidueFilterCreator
)
chidev()
(in
RotamerLibraryScratchSpace
)
clone()
(in
SymRestrictTaskForDocking
)
create_filter()
(in
IRmsdFilterCreator
)
chidevpen()
(in
RotamerLibraryScratchSpace
)
clone()
(in
SymSidechainMinMover
)
create_filter()
(in
InterfaceHolesFilterCreator
)
CHIEnergyFunction
(in
rosetta.core.scoring.carbohydrates._core_scoring_carbohydrates_
)
clone()
(in
MPSymDockMover
)
create_filter()
(in
LRmsdFilterCreator
)
CHIEnergyFunctionAP
(in
rosetta.core.scoring.carbohydrates._core_scoring_carbohydrates_
)
clone()
(in
AllowInsert
)
create_filter()
(in
RelativeSegmentFilterCreator
)
CHIEnergyFunctionCAP
(in
rosetta.core.scoring.carbohydrates._core_scoring_carbohydrates_
)
clone()
(in
DummyClass
)
create_filter()
(in
RmsdFilterCreator
)
child()
(in
Atom
)
clone()
(in
SF_Replica
)
create_filter()
(in
RmsdSimpleFilterCreator
)
child()
(in
Atom_
)
clone()
(in
AlignPoseToInvrotTreeMover
)
create_filter()
(in
SSamountFilterCreator
)
child()
(in
ArithmeticASTFactor
)
clone()
(in
EnzdesCacheableObserver
)
create_filter()
(in
SequenceRecoveryFilterCreator
)
child_index()
(in
Atom
)
clone()
(in
InvrotCollector
)
create_filter()
(in
SpecificResiduesNearInterfaceFilterCreator
)
child_index()
(in
Atom_
)
clone()
(in
BuriedUnsatisfiedPolarsCalculator
)
create_filter()
(in
StubScoreFilterCreator
)
children_begin()
(in
ArithmeticASTExpression
)
clone()
(in
CatPiCalculator
)
create_filter()
(in
StubScoreLoopsFilterCreator
)
children_begin()
(in
ArithmeticASTFunction
)
clone()
(in
ChargeCalculator
)
create_filter()
(in
TorsionCreator
)
children_begin()
(in
ArithmeticASTRestExpression
)
clone()
(in
ClashCountCalculator
)
create_filter()
(in
AlaScanFilterCreator
)
children_begin()
(in
ArithmeticASTRestTerm
)
clone()
(in
DecomposeAndReweightEnergiesCalculator
)
create_filter()
(in
AngleToVectorFilterCreator
)
children_begin()
(in
ArithmeticASTTerm
)
clone()
(in
FragQualCalculator
)
create_filter()
(in
AtomicContactFilterCreator
)
children_end()
(in
ArithmeticASTExpression
)
clone()
(in
HPatchCalculator
)
create_filter()
(in
AtomicDistanceFilterCreator
)
children_end()
(in
ArithmeticASTFunction
)
clone()
(in
InterGroupNeighborsCalculator
)
create_filter()
(in
AveragePathLengthFilterCreator
)
children_end()
(in
ArithmeticASTRestExpression
)
clone()
(in
NeighborhoodByDistanceCalculator
)
create_filter()
(in
BuriedUnsatHbondFilterCreator
)
children_end()
(in
ArithmeticASTRestTerm
)
clone()
(in
NeighborsByDistanceCalculator
)
create_filter()
(in
ConservedPosMutationFilterCreator
)
children_end()
(in
ArithmeticASTTerm
)
clone()
(in
NonlocalContactsCalculator
)
create_filter()
(in
ConstraintScoreCutoffFilterCreator
)
chimean()
(in
RotamerLibraryScratchSpace
)
clone()
(in
NumberHBondsCalculator
)
create_filter()
(in
DdGScanCreator
)
chinum()
(in
SetChiMover
)
clone()
(in
PackstatCalculator
)
create_filter()
(in
DdgFilterCreator
)
chiral
(in
rosetta.protocols.simple_moves
)
clone()
(in
PiPiCalculator
)
create_filter()
(in
DeltaFilterCreator
)
chiral_equivalent_name()
(in
ResidueType
)
clone()
(in
ResidueDecompositionByChainCalculator
)
create_filter()
(in
DisulfideEntropyFilterCreator
)
Chirality
(in
rosetta.protocols.simple_moves.chiral._protocols_simple_moves_chiral_
)
clone()
(in
ResidueDecompositionCalculator
)
create_filter()
(in
EnergyPerResidueFilterCreator
)
ChiralMover
(in
rosetta.protocols.simple_moves.chiral._protocols_simple_moves_chiral_
)
clone()
(in
RotamerBoltzCalculator
)
create_filter()
(in
ExpiryFilterCreator
)
ChiralMoverAP
(in
rosetta.protocols.simple_moves.chiral._protocols_simple_moves_chiral_
)
clone()
(in
SHOBuriedUnsatisfiedPolarsCalculator
)
create_filter()
(in
FileExistFilterCreator
)
ChiralMoverCAP
(in
rosetta.protocols.simple_moves.chiral._protocols_simple_moves_chiral_
)
clone()
(in
SaltBridgeCalculator
)
create_filter()
(in
FileRemoveFilterCreator
)
chis_from_pose()
(in
RotamerRecovery
)
clone()
(in
SemiExplicitWaterUnsatisfiedPolarsCalculator
)
create_filter()
(in
GeometryFilterCreator
)
chisd()
(in
RotamerLibraryScratchSpace
)
clone()
(in
SurfaceCalculator
)
create_filter()
(in
HolesFilterCreator
)
ChiSet
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
clone()
(in
AddGood2BPairEnergyRotamers
)
create_filter()
(in
InterRepeatContactFilterCreator
)
ChiSetAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
clone()
(in
RigidBodyMoveRSO
)
create_filter()
(in
InterfaceBindingEnergyDensityFilterCreator
)
ChiSetCAP
(in
rosetta.core.pack.dunbrack._core_pack_dunbrack_
)
clone()
(in
SpecialRotamerRSO
)
create_filter()
(in
InterfaceSasaFilterCreator
)
ChiState
(in
rosetta.core.chemical.rna._core_chemical_rna_
)
clone()
(in
AlignedThreadOperation
)
create_filter()
(in
IntraRepeatContactFilterCreator
)
ChiStrategy
(in
rosetta.protocols.match.upstream._protocols_match_upstream_
)
clone()
(in
ConservativeDesignOperation
)
create_filter()
(in
LeastNativeLike9merFilterCreator
)
chitip_atom()
(in
UpstreamResTypeGeometry
)
clone()
(in
CrystalContactsOperation
)
create_filter()
(in
MotifScoreFilterCreator
)
chitip_atoms()
(in
UpstreamResTypeGeometry
)
clone()
(in
DatabaseThread
)
create_filter()
(in
MultipleSigmoidsFilterCreator
)
ChiWellRmsdEvaluator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
DesignAroundOperation
)
create_filter()
(in
MutationsFilterCreator
)
ChiWellRmsdEvaluatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
DockingNoRepack1
)
create_filter()
(in
NMerPSSMEnergyFilterCreator
)
ChiWellRmsdEvaluatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
DockingNoRepack2
)
create_filter()
(in
NMerSVMEnergyFilterCreator
)
ChiWellRmsdEvaluatorCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
DsspDesignOperation
)
create_filter()
(in
NeighborTypeFilterCreator
)
ChiWellRmsdEvaluatorCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
ImportUnboundRotamersOperation
)
create_filter()
(in
NetChargeFilterCreator
)
ChiWellRmsdEvaluatorCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
clone()
(in
InteractingRotamerExplosion
)
create_filter()
(in
NonSequentialNeighborsFilterCreator
)
choices()
(in
DiscreteRandomizer
)
clone()
(in
JointSequenceOperation
)
create_filter()
(in
OperatorFilterCreator
)
choices()
(in
Mutate1Randomizer
)
clone()
(in
LimitAromaChi2Operation
)
create_filter()
(in
PackStatFilterCreator
)
choices()
(in
PositionSpecificRandomizer
)
clone()
(in
LimitAromaChi2_RotamerSetOperation
)
create_filter()
(in
PoseCommentFilterCreator
)
choose_best_solution_based_on_score_function()
(in
CoarseRNA_LoopCloser
)
clone()
(in
LinkResidues
)
create_filter()
(in
PoseInfoFilterCreator
)
choose_cutpoint()
(in
Loop
)
clone()
(in
ModifyAnnealer
)
create_filter()
(in
RangeFilterCreator
)
choose_cutpoints()
(in
Loops
)
clone()
(in
MutationSetDesignOperation
)
create_filter()
(in
RelativePoseFilterCreator
)
choose_effective_sequence_separation()
(in
DunbrackConstraint
)
clone()
(in
PreventChainFromRepackingOperation
)
create_filter()
(in
RepeatParameterFilterCreator
)
choose_effective_sequence_separation()
(in
RotamerConstraint
)
clone()
(in
PreventResiduesFromRepackingOperation
)
create_filter()
(in
ReportFilterCreator
)
choose_effective_sequence_separation()
(in
AmbiguousConstraint
)
clone()
(in
ProteinCore
)
create_filter()
(in
ResidueBurialFilterCreator
)
choose_effective_sequence_separation()
(in
AmbiguousNMRConstraint
)
clone()
(in
ProteinInterfaceDesignOperation
)
create_filter()
(in
ResidueCountFilterCreator
)
choose_effective_sequence_separation()
(in
AmbiguousNMRDistanceConstraint
)
clone()
(in
ReadResfileFromDB
)
create_filter()
(in
ResidueDistanceFilterCreator
)
choose_effective_sequence_separation()
(in
AngleConstraint
)
clone()
(in
ResidueProbDesignOperation
)
create_filter()
(in
ResidueIEFilterCreator
)
choose_effective_sequence_separation()
(in
AtomPairConstraint
)
clone()
(in
RestrictByCalculatorsOperation
)
create_filter()
(in
ResidueSetChainEnergyFilterCreator
)
choose_effective_sequence_separation()
(in
BackboneStubConstraint
)
clone()
(in
RestrictChainToRepackingOperation
)
create_filter()
(in
ResiduesInInterfaceFilterCreator
)
choose_effective_sequence_separation()
(in
BackboneStubLinearConstraint
)
clone()
(in
RestrictConservedLowDdgOperation
)
create_filter()
(in
RotamerBoltzmannWeightFilterCreator
)
choose_effective_sequence_separation()
(in
BigBinConstraint
)
clone()
(in
RestrictIdentitiesAtAlignedPositionsOperation
)
create_filter()
(in
SSMotifFinderFilterCreator
)
choose_effective_sequence_separation()
(in
ConstantConstraint
)
clone()
(in
RestrictIdentitiesOperation
)
create_filter()
(in
SavePoseConstraintToFileFilterCreator
)
choose_effective_sequence_separation()
(in
Constraint
)
clone()
(in
RestrictInterGroupVectorOperation
)
create_filter()
(in
SaveResfileToDiskFilterCreator
)
choose_effective_sequence_separation()
(in
CoordinateConstraint
)
clone()
(in
RestrictNativeResiduesOperation
)
create_filter()
(in
ScoreCutoffFilterCreator
)
choose_effective_sequence_separation()
(in
DihedralConstraint
)
clone()
(in
RestrictNonSurfaceToRepackingOperation
)
create_filter()
(in
ScoreTypeFilterCreator
)
choose_effective_sequence_separation()
(in
DihedralPairConstraint
)
clone()
(in
RestrictOperationsBase
)
create_filter()
(in
ShapeComplementarityFilterCreator
)
choose_effective_sequence_separation()
(in
DistancePairConstraint
)
clone()
(in
RestrictResiduesToRepackingOperation
)
create_filter()
(in
SidechainRmsdFilterCreator
)
choose_effective_sequence_separation()
(in
FabConstraint
)
clone()
(in
RestrictToAlignedSegmentsOperation
)
create_filter()
(in
SigmoidFilterCreator
)
choose_effective_sequence_separation()
(in
KofNConstraint
)
clone()
(in
RestrictToCDRH3Loop
)
create_filter()
(in
StemFinderFilterCreator
)
choose_effective_sequence_separation()
(in
LocalCoordinateConstraint
)
clone()
(in
RestrictToInterface
)
create_filter()
(in
SymmetricMotifFilterCreator
)
choose_effective_sequence_separation()
(in
MultiConstraint
)
clone()
(in
RestrictToInterfaceOperation
)
create_filter()
(in
TaskAwareSASAFilterCreator
)
choose_effective_sequence_separation()
(in
NamedAngleConstraint
)
clone()
(in
RestrictToInterfaceVectorOperation
)
create_filter()
(in
TaskAwareScoreTypeFilterCreator
)
choose_effective_sequence_separation()
(in
NamedAtomPairConstraint
)
clone()
(in
RestrictToLoops
)
create_filter()
(in
TerminusDistanceFilterCreator
)
choose_effective_sequence_separation()
(in
NonResidueTypeConstraint
)
clone()
(in
RestrictToLoopsAndNeighbors
)
create_filter()
(in
TotalSasaFilterCreator
)
choose_effective_sequence_separation()
(in
ResidueTypeConstraint
)
clone()
(in
RestrictToMoveMapChiOperation
)
create_flexbb_interaction_graph()
(in
FlexbbIGFactory
)
choose_effective_sequence_separation()
(in
ResidueTypeLinkingConstraint
)
clone()
(in
RestrictToNeighborhoodOperation
)
create_fragment_set()
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
choose_effective_sequence_separation()
(in
SequenceProfileConstraint
)
clone()
(in
RestrictToTerminiOperation
)
create_fragment_set_no_ssbias()
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
choose_effective_sequence_separation()
(in
SiteConstraint
)
clone()
(in
RetrieveStoredTaskOperation
)
create_from_pose()
(in
ResidueNetwork
)
choose_effective_sequence_separation()
(in
SiteConstraintResidues
)
clone()
(in
STMStoredTask
)
create_full_to_input_res_map()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
choose_effective_sequence_separation()
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clone()
(in
SelectByDeltaScoreOperation
)
create_grid_for_bb()
(in
Bool3DGrid
)
choose_effective_sequence_separation()
(in
AmbiguousMultiConstraint
)
clone()
(in
SelectByDensityFitOperation
)
create_grid_for_sphere()
(in
Bool3DGrid
)
choose_effective_sequence_separation()
(in
BindingSiteConstraint
)
clone()
(in
SelectBySASAOperation
)
create_inner_cycle()
(in
LoopRefineInnerCycleFactory
)
choose_effective_sequence_separation()
(in
COMCoordinateConstraint
)
clone()
(in
SelectResiduesWithinChainOperation
)
create_interaction_graph()
(in
InteractionGraphFactory
)
choose_effective_sequence_separation()
(in
SequenceCoupling1BDConstraint
)
clone()
(in
SeqprofConsensusOperation
)
create_intrares_count_pair_function()
(in
CountPairFactory
)
choose_effective_sequence_separation()
(in
SequenceCouplingConstraint
)
clone()
(in
SetIGTypeOperation
)
create_job_distributor()
(in
JobDistributorFactory
)
choose_effective_sequence_separation()
(in
PocketConstraint
)
clone()
(in
StoreCombinedStoredTasksMover
)
create_job_inputter()
(in
JobDistributorFactory
)
choose_fragment()
(in
ClassicFragmentMover
)
clone()
(in
StoreCompoundTaskMover
)
create_job_outputter()
(in
JobDistributorFactory
)
choose_hbond_parameter_set()
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
clone()
(in
StoreTaskMover
)
create_JobInputter()
(in
GenericJobInputterCreator
)
choose_least_perturb_solution()
(in
CoarseRNA_LoopCloser
)
clone()
(in
ThreadSequenceOperation
)
create_JobInputter()
(in
ThreadingJobInputterCreator
)
choose_origin_with_lowest_eggshell_ruggedness()
(in
NonPlaidFingerprint
)
clone()
(in
DensityScoringClaimer
)
create_JobInputter()
(in
DatabaseJobInputterCreator
)
choose_random()
(in
StepWiseBasicModelerOptions
)
clone()
(in
FoldandDockClaimer
)
create_JobInputter()
(in
AtomTreeDiffJobInputterCreator
)
choose_random()
(in
StepWiseProteinCCD_MultiPoseCloser
)
clone()
(in
MembraneTopologyClaimer
)
create_JobInputter()
(in
JD2ResourceManagerJobInputterCreator
)
choose_random()
(in
StepWiseMoveSelector
)
clone()
(in
SymmetryClaimer
)
create_JobInputter()
(in
JobInputterCreator
)
choose_random_if_unspecified_nucleotide()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clone()
(in
TopologyClaimer
)
create_JobInputter()
(in
LazySilentFileJobInputterCreator
)
choose_window_length()
(in
ClassicFragmentMover
)
clone()
(in
BBClaim
)
create_JobInputter()
(in
PDBJobInputterCreator
)
choose_window_start()
(in
ClassicFragmentMover
)
clone()
(in
CutClaim
)
create_JobInputter()
(in
PoseInputStreamJobInputterCreator
)
chop_fragments()
(in
rosetta.core.fragment._core_fragment_
)
clone()
(in
DofClaim
)
create_JobInputter()
(in
ScreeningJobInputterCreator
)
chothia
(in
SasaRadii
)
clone()
(in
JumpClaim
)
create_JobInputter()
(in
SilentFileJobInputterCreator
)
chothia
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
clone()
(in
LegacyRootClaim
)
create_JobInputter()
(in
MakeRotLibJobInputterCreator
)
chothia
(in
rosetta.core.scoring.sasa
)
clone()
(in
SequenceClaim
)
create_JobInputter()
(in
ParserJobInputterCreator
)
Chothia
(in
rosetta.protocols.antibody
)
clone()
(in
SymmetryClaim
)
create_JobOutputter()
(in
DatabaseJobOutputterCreator
)
Chothia
(in
CDRDefinitionEnum
)
clone()
(in
UnfoldedStateEnergyCalculatorMover
)
create_JobOutputter()
(in
AtomTreeDiffJobOutputterCreator
)
Chothia
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
DatabaseEntryWorkUnit
)
create_JobOutputter()
(in
JobOutputterCreator
)
Chothia_Scheme
(in
rosetta.protocols.antibody
)
clone()
(in
WorkUnitBase
)
create_JobOutputter()
(in
NoOutputJobOutputterCreator
)
Chothia_Scheme
(in
AntibodyNumberingSchemeEnum
)
clone()
(in
WorkUnit_MoverWrapper
)
create_JobOutputter()
(in
PDBJobOutputterCreator
)
Chothia_Scheme
(in
rosetta.protocols.antibody._protocols_antibody_
)
clone()
(in
WorkUnit_SilentStructStore
)
create_JobOutputter()
(in
ScoreOnlyJobOutputterCreator
)
chrg
(in
atomitem
)
clone()
(in
WorkUnit_Wait
)
create_JobOutputter()
(in
SilentFileJobOutputterCreator
)
chrg
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
clone()
(in
Tag
)
create_jump_def()
(in
Templates
)
chrg
(in
rosetta.core.scoring.rna.chemical_shift
)
clone_as_base_class()
(in
ScoreFunction
)
create_jump_fragments()
(in
BasePairingLibrary
)
chunk
(in
TransactionMode
)
clone_cache_data()
(in
Frame
)
create_jump_fragments()
(in
DisulfPairingLibrary
)
chunk
(in
e
)
clone_info()
(in
FullModelInfo
)
create_jump_fragments()
(in
PairingLibrary
)
chunk_coverage()
(in
RNA_ChunkLibrary
)
clone_modeler()
(in
StepWiseModeler
)
create_jump_sample()
(in
FixTemplateJumpSetup
)
chunk_key()
(in
VallChunk
)
clone_sampler()
(in
MultiPhosphateSampler
)
create_jump_sample()
(in
TemplateJumpSetup
)
chunk_probabilities()
(in
rosetta.protocols.medal._protocols_medal_
)
clone_scorefxn()
(in
RNA_Minimizer
)
create_jump_sample()
(in
BaseJumpSetup
)
chunk_set()
(in
RNA_ChunkLibrary
)
clone_shifted()
(in
FragSet
)
create_jump_sample()
(in
JumpSelector
)
ChunkSet
(in
rosetta.protocols.farna._protocols_farna_
)
clone_with_frags()
(in
Frame
)
create_jump_sample()
(in
JumpSetup
)
ChunkSetAP
(in
rosetta.protocols.farna._protocols_farna_
)
clone_with_frags()
(in
JumpingFrame
)
create_jump_sample()
(in
JumpsFromAllPairings
)
ChunkSetCAP
(in
rosetta.protocols.farna._protocols_farna_
)
clone_with_frags()
(in
NonContinuousFrame
)
create_jump_sample()
(in
ResiduePairJumpSetup
)
ChunkTrialMover
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone_with_new_sequence_numbering()
(in
PseudoBondCollection
)
create_jump_sample()
(in
SheetBuilder
)
ChunkTrialMoverAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone_with_template()
(in
Frame
)
create_loader()
(in
DataLoaderCreator
)
ChunkTrialMoverCAP
(in
rosetta.protocols.hybridization._protocols_hybridization_
)
clone_with_template()
(in
JumpingFrame
)
create_loader()
(in
FragSetLoaderCreator
)
ci_1b
(in
EnergyMethodType
)
clone_with_template()
(in
NonContinuousFrame
)
create_loader()
(in
MonteCarloLoaderCreator
)
ci_1b
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
closable()
(in
RNA_KIC_Sampler
)
create_loader()
(in
ResidueSelectorLoaderCreator
)
ci_1b
(in
rosetta.core.scoring.methods
)
close()
(in
DnaNeighbor
)
create_loader()
(in
ScoreFunctionLoaderCreator
)
ci_1b_types()
(in
ScoreFunction
)
close()
(in
SingleFileBuffer
)
create_loader()
(in
TaskOperationLoaderCreator
)
ci_2b
(in
EnergyMethodType
)
close_bond()
(in
GeneralizedKIC
)
create_loader()
(in
InterfaceBuilderLoaderCreator
)
ci_2b
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
close_chainbreaks()
(in
rosetta.protocols.jumping._protocols_jumping_
)
create_loader()
(in
LigandAreaLoaderCreator
)
ci_2b
(in
rosetta.core.scoring.methods
)
close_file()
(in
MpiFileBuffer
)
create_loader()
(in
MoveMapBuilderLoaderCreator
)
ci_2b_begin()
(in
ScoreFunction
)
close_gaps()
(in
LoopHashSampler
)
create_loader()
(in
LoopsDefinerLoaderCreator
)
ci_2b_end()
(in
ScoreFunction
)
close_loops()
(in
AbrelaxApplication
)
create_loop_mover()
(in
LoopMoverFactory
)
ci_2b_intrares_begin()
(in
ScoreFunction
)
close_loops_carefully()
(in
RNA_LoopCloser
)
create_loops_definer()
(in
LoopsDatabaseDefinerCreator
)
ci_2b_intrares_end()
(in
ScoreFunction
)
close_one_loop_stem()
(in
CloseOneMover
)
create_loops_definer()
(in
LoopsDefinerCreator
)
ci_2b_types()
(in
ScoreFunction
)
close_to_dna()
(in
rosetta.protocols.dna._protocols_dna_
)
create_loops_definer()
(in
LoopsDefinerFactory
)
ci_lr_2b
(in
EnergyMethodType
)
closed_loop()
(in
StepWiseProteinCCD_Closer
)
create_loops_definer()
(in
LoopsExplicitDefinerCreator
)
ci_lr_2b
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
CloseFold
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
create_loops_definer()
(in
LoopsFileDefinerCreator
)
ci_lr_2b
(in
rosetta.core.scoring.methods
)
CloseFoldAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
create_match_position_modifier()
(in
rosetta.protocols.match._protocols_match_
)
ci_lr_2b_methods_begin()
(in
ScoreFunction
)
CloseFoldCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
create_mover()
(in
DomainAssemblyCreator
)
ci_lr_2b_methods_end()
(in
ScoreFunction
)
CloseFoldCreator
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
create_mover()
(in
AbscriptLoopCloserCMCreator
)
ci_lr_2b_types()
(in
ScoreFunction
)
CloseFoldCreatorAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
create_mover()
(in
AbscriptMoverCreator
)
Circle
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
CloseFoldCreatorCAP
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
create_mover()
(in
ConstraintPreparerCreator
)
CircleAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
CloseOneCDRLoop
(in
rosetta.protocols.antibody._protocols_antibody_
)
create_mover()
(in
FragmentCMCreator
)
CircleCAP
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
CloseOneCDRLoopAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
create_mover()
(in
FragmentJumpCMCreator
)
CircularGeneral1D_Func
(in
rosetta.core.scoring.func._core_scoring_func_
)
CloseOneCDRLoopCAP
(in
rosetta.protocols.antibody._protocols_antibody_
)
create_mover()
(in
RigidChunkCMCreator
)
CircularGeneral1D_FuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
CloseOneMover
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
create_mover()
(in
StructPerturberCMCreator
)
CircularGeneral1D_FuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
CloseOneMoverAP
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
create_mover()
(in
InterfaceAnalyzerMoverCreator
)
CircularHarmonicFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
CloseOneMoverCAP
(in
rosetta.protocols.antibody_legacy._protocols_antibody_legacy_
)
create_mover()
(in
CDRDihedralConstraintMoverCreator
)
CircularHarmonicFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
Closest
(in
rosetta.protocols.indexed_structure_store.filters
)
create_mover()
(in
ParatopeEpitopeSiteConstraintMoverCreator
)
CircularHarmonicFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
Closest
(in
rosetta.protocols.indexed_structure_store.filters._protocols_indexed_structure_store_filters_
)
create_mover()
(in
ParatopeSiteConstraintMoverCreator
)
CircularPermutation
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
Closest
(in
LookupMode
)
create_mover()
(in
AntibodyDesignMoverCreator
)
CircularPermutationAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
closest_interface_residue()
(in
Interface
)
create_mover()
(in
AntibodyDesignProtocolCreator
)
CircularPermutationCAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
closest_interface_residue()
(in
InterfaceInfo
)
create_mover()
(in
MutateFrameworkForClusterCreator
)
CircularPermutationCreator
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
closest_larger_peptide_vertex()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
create_mover()
(in
BackrubMoverCreator
)
CircularPermutationCreatorAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
closest_smaller_peptide_vertex()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
create_mover()
(in
BackrubProtocolCreator
)
CircularPermutationCreatorCAP
(in
rosetta.protocols.fldsgn._protocols_fldsgn_
)
closest_state_on_alt_bb()
(in
FlexbbNode
)
create_mover()
(in
BackrubSidechainMoverCreator
)
CircularPowerFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
closure_fragments()
(in
LoopClosure
)
create_mover()
(in
DbTrajectoryRecorderCreator
)
CircularPowerFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
closure_fragments()
(in
SlidingWindowLoopClosure
)
create_mover()
(in
HamiltonianExchangeCreator
)
CircularPowerFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
closure_protocol()
(in
AbrelaxMover
)
create_mover()
(in
MetricRecorderCreator
)
CircularSigmoidalFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
closure_protocol()
(in
KinematicAbinitio
)
create_mover()
(in
MetropolisHastingsMoverCreator
)
CircularSigmoidalFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
ClosureProblem
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
create_mover()
(in
PDBTrajectoryRecorderCreator
)
CircularSigmoidalFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
ClosureProblemAP
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
create_mover()
(in
ParallelTemperingCreator
)
CircularSplineFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
ClosureProblemCAP
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
create_mover()
(in
ProgressBarObserverCreator
)
CircularSplineFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
ClosureSolution
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
create_mover()
(in
SidechainMetropolisHastingsMoverCreator
)
CircularSplineFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
ClosureSolutionAP
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
create_mover()
(in
SilentTrajectoryRecorderCreator
)
cis_omega()
(in
ABEGO
)
ClosureSolutionCAP
(in
rosetta.protocols.kinematic_closure._protocols_kinematic_closure_
)
create_mover()
(in
SimulatedTemperingCreator
)
cis_omega_torsion_bin()
(in
rosetta.core.conformation._core_conformation_
)
CloudPDBWriter
(in
rosetta.protocols.match.output._protocols_match_output_
)
create_mover()
(in
TrialCounterObserverCreator
)
cis_trans_match()
(in
CDRCluster
)
CloudPDBWriterAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
create_mover()
(in
LoopRelaxMoverCreator
)
CIS_XP
(in
rosetta
)
CloudPDBWriterCAP
(in
rosetta.protocols.match.output._protocols_match_output_
)
create_mover()
(in
ContactMapCreator
)
CIS_XP
(in
rosetta.core.scoring
)
cluster
(in
rosetta.protocols
)
create_mover()
(in
FitBfactorsMoverCreator
)
CIS_XP
(in
rosetta.core.scoring._core_scoring_
)
Cluster
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
LoadDensityMapMoverCreator
)
CIS_XP
(in
Rama2BOffsetTables
)
cluster()
(in
AgglomerativeHierarchicalClusterer
)
create_mover()
(in
RecomputeDensityMapMoverCreator
)
CIS_XX
(in
rosetta
)
cluster()
(in
CDRCluster
)
create_mover()
(in
SetCrystWeightMoverCreator
)
CIS_XX
(in
rosetta.core.scoring
)
cluster()
(in
APCluster
)
create_mover()
(in
SetRefinementOptionsMoverCreator
)
CIS_XX
(in
rosetta.core.scoring._core_scoring_
)
cluster()
(in
HotspotStubSet
)
create_mover()
(in
TagPoseWithRefinementStatsMoverCreator
)
CIS_XX
(in
Rama2BOffsetTables
)
cluster()
(in
StepWiseRNA_Clusterer
)
create_mover()
(in
UpdateSolventMoverCreator
)
claim_accepted()
(in
FoldandDockClaimer
)
cluster()
(in
StepWiseClusterer
)
create_mover()
(in
CreateAngleConstraintCreator
)
claim_accepted()
(in
MembraneTopologyClaimer
)
cluster()
(in
StepWiseLegacyClusterer
)
create_mover()
(in
CreateDistanceConstraintCreator
)
claim_accepted()
(in
TopologyClaimer
)
cluster()
(in
StepWiseLegacyClustererSilentBased
)
create_mover()
(in
CreateTorsionConstraintCreator
)
claim_backbone()
(in
TorsionClaim
)
cluster()
(in
ClusterBase
)
create_mover()
(in
DeclareBondCreator
)
claim_sidechain()
(in
TorsionClaim
)
cluster()
(in
KCluster
)
create_mover()
(in
PeptideStubMoverCreator
)
claimer_builds_own_fold_tree()
(in
FoldandDockClaimer
)
cluster_by_all_atom_rmsd()
(in
StepWiseProteinModelerOptions
)
create_mover()
(in
GreedyOptMutationMoverCreator
)
claimer_builds_own_fold_tree()
(in
MembraneTopologyClaimer
)
cluster_KeyFeatures()
(in
GenPharmacophore
)
create_mover()
(in
ParetoOptMutationMoverCreator
)
claimer_builds_own_fold_tree()
(in
TopologyClaimer
)
Cluster_Member
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
create_mover()
(in
DesignProteinBackboneAroundDNACreator
)
ClaimRight
(in
DofClaim
)
Cluster_MemberAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
create_mover()
(in
DnaInterfaceMinMoverCreator
)
claims
(in
rosetta.protocols.environment
)
Cluster_MemberCAP
(in
rosetta.protocols.stepwise.legacy.modeler.rna._protocols_stepwise_legacy_modeler_rna_'
)
create_mover()
(in
DnaInterfaceMultiStateDesignCreator
)
claims
(in rosetta.protocols.topology_broker)
cluster_rmsd()
(in
StepWiseClusterer
)
create_mover()
(in
DnaInterfacePackerCreator
)
ClaimStrength
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
cluster_rmsd()
(in
StepWiseBasicOptions
)
create_mover()
(in
SeparateDnaFromNonDnaCreator
)
ClaimStrengthAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
ClusterAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
ConformerSwitchMoverCreator
)
ClaimStrengthCAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
ClusterBase
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
DockSetupMoverCreator
)
clash()
(in
xyzStripeHash
)
ClusterBase
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
DockingInitialPerturbationCreator
)
clash_amount()
(in
xyzStripeHash
)
ClusterBaseAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
DockingProtocolCreator
)
clash_check()
(in
ResPairMotifQuery
)
ClusterBaseAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
TemperedDockingCreator
)
clash_check()
(in
ImplicitFastClashCheck
)
ClusterBaseCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
MPDockingMoverCreator
)
clash_check_ball()
(in
xyzStripeHash
)
ClusterBaseCAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
MPDockingSetupMoverCreator
)
clash_check_residue_pairs()
(in
xyzStripeHash
)
ClusterCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
BfactorFittingMoverCreator
)
clash_check_test()
(in
ImplicitFastClashCheck
)
clusterCPockets()
(in
PocketGrid
)
create_mover()
(in
DensityMorphingMoverCreator
)
clash_check_trimer()
(in
ImplicitFastClashCheck
)
ClusterData
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
create_mover()
(in
ReportFSCCreator
)
clash_count()
(in
ImplicitFastClashCheck
)
ClusterDataAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
create_mover()
(in
ScaleMapIntensitiesCreator
)
clash_dist()
(in
ClashCheckFilter
)
ClusterDataCAP
(in
rosetta.protocols.antibody.clusters._protocols_antibody_clusters_
)
create_mover()
(in
SetupForDensityScoringMoverCreator
)
clash_not_resid()
(in
xyzStripeHash
)
clustered_pose_list()
(in
StepWiseLegacyClustererSilentBased
)
create_mover()
(in
CoMTrackerCMCreator
)
clash_raw()
(in
xyzStripeHash
)
Clusterer
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
create_mover()
(in
EnvMoverCreator
)
ClashBasedRepackShellSelector
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
ClustererAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
create_mover()
(in
ScriptCMCreator
)
ClashBasedRepackShellSelectorAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
ClustererCAP
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
create_mover()
(in
ReportToDBCreator
)
ClashBasedRepackShellSelectorCAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
ClusteringTreeNode
(in
rosetta.numeric._numeric_
)
create_mover()
(in
TrajectoryReportToDBCreator
)
ClashBasedRepackShellSelectorCreator
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
ClusteringTreeNodeAP
(in
rosetta.numeric._numeric_
)
create_mover()
(in
BluePrintBDRCreator
)
ClashBasedRepackShellSelectorCreatorAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
ClusteringTreeNodeCAP
(in
rosetta.numeric._numeric_
)
create_mover()
(in
CircularPermutationCreator
)
ClashBasedRepackShellSelectorCreatorCAP
(in
rosetta.core.pack.task.residue_selector._core_pack_task_residue_selector_
)
clusterlist()
(in
ClusterBase
)
create_mover()
(in
MatchResiduesMoverCreator
)
ClashCheckFilter
(in
rosetta.protocols.matdes._protocols_matdes_
)
ClusterOptions
(in
rosetta.numeric._numeric_
)
create_mover()
(in
SheetCstGeneratorCreator
)
ClashCheckFilterAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
ClusterOptions
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
SetAACompositionPotentialCreator
)
ClashCheckFilterCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
ClusterOptionsAP
(in
rosetta.numeric._numeric_
)
create_mover()
(in
SetSecStructEnergiesCreator
)
ClashCheckFilterCreator
(in
rosetta.protocols.matdes._protocols_matdes_
)
ClusterOptionsAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
FlexPepDockingProtocolCreator
)
ClashCheckFilterCreatorAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
ClusterOptionsCAP
(in
rosetta.numeric._numeric_
)
create_mover()
(in
FlxbbDesignCreator
)
ClashCheckFilterCreatorCAP
(in
rosetta.protocols.matdes._protocols_matdes_
)
ClusterOptionsCAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
GeneralizedKICCreator
)
ClashCountCalculator
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
ClusterPhilStyle
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
AnchoredGraftMoverCreator
)
ClashCountCalculatorAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
ClusterPhilStyle
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
CCDEndsGraftMoverCreator
)
ClashCountCalculatorCAP
(in
rosetta.protocols.toolbox.pose_metric_calculators._protocols_toolbox_pose_metric_calculators_
)
ClusterPhilStyle_Loop
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
DeleteRegionMoverCreator
)
clashes()
(in
Rose
)
ClusterPhilStyle_LoopAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
InsertPoseIntoPoseMoverCreator
)
clashes_naive()
(in
Rose
)
ClusterPhilStyle_LoopCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
KeepRegionMoverCreator
)
ClashWithTargetFilter
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
ClusterPhilStyle_PoseReporter
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
ReplaceRegionMoverCreator
)
ClashWithTargetFilterAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
ClusterPhilStyle_PoseReporterAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
BackboneGridSamplerCreator
)
ClashWithTargetFilterCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
ClusterPhilStyle_PoseReporterCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
BundleGridSamplerCreator
)
ClashWithTargetFilterCreator
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
ClusterPhilStyleAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
FitSimpleHelixCreator
)
ClashWithTargetFilterCreatorAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
ClusterPhilStyleAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
MakeBundleCreator
)
ClashWithTargetFilterCreatorCAP
(in
rosetta.protocols.protein_interface_design.filters._protocols_protein_interface_design_filters_
)
ClusterPhilStyleCAP
(in
rosetta.protocols.cluster._protocols_cluster_
)
create_mover()
(in
MakeBundleHelixCreator
)
class_name()
(in
AndResidueSelector
)
ClusterPhilStyleCAP
(in
rosetta.protocols.toolbox._protocols_toolbox_
)
create_mover()
(in
PerturbBundleCreator
)
class_name()
(in
ChainSelector
)
clusterPockets()
(in
PocketGrid
)
create_mover()
(in
PerturbBundleHelixCreator
)
class_name()
(in
ClashBasedRepackShellSelector
)
clusters
(in
rosetta.protocols.antibody
)
create_mover()
(in
PlaceSurfaceProbeCreator
)
class_name()
(in
InterGroupInterfaceByVectorSelector
)
cm_main()
(in
rosetta.protocols.comparative_modeling._protocols_comparative_modeling_
)
create_mover()
(in
BackboneTorsionPerturbationCreator
)
class_name()
(in
JumpDownstreamSelector
)
CMCT
(in
rosetta.core.scoring.rna.data
)
create_mover()
(in
BackboneTorsionSamplerCreator
)
class_name()
(in
JumpUpstreamSelector
)
CMCT
(in
rosetta.core.scoring.rna.data._core_scoring_rna_data_
)
create_mover()
(in
CartesianSamplerCreator
)
class_name()
(in
NeighborhoodResidueSelector
)
CMCT
(in
RNA_ReactivityType
)
create_mover()
(in
HybridizeProtocolCreator
)
class_name()
(in
NotResidueSelector
)
cmd_line_csts()
(in
LoopRelaxMover
)
create_mover()
(in
IdealizeMoverCreator
)
class_name()
(in
NumNeighborsSelector
)
cmp()
(in
Event
)
create_mover()
(in
KicMoverCreator
)
class_name()
(in
OrResidueSelector
)
co
(in
rosetta
)
create_mover()
(in
AddHydrogensCreator
)
class_name()
(in
ResidueIndexSelector
)
co
(in
ScoreType
)
create_mover()
(in
CompoundTranslateCreator
)
class_name()
(in
ResidueNameSelector
)
co
(in
rosetta.core.scoring._core_scoring_
)
create_mover()
(in
ComputeLigandRDFCreator
)
class_name()
(in
SecondaryStructureSelector
)
co
(in
rosetta.core.scoring
)
create_mover()
(in
FinalMinimizerCreator
)
class_name()
(in
TrueResidueSelector
)
COARSE
(in
rosetta
)
create_mover()
(in
GrowLigandCreator
)
class_name()
(in
EnvLabelSelector
)
COARSE
(in
rosetta.core.chemical
)
create_mover()
(in
HighResDockerCreator
)
ClassicAbinitio
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
COARSE
(in
rosetta.core.chemical._core_chemical_
)
create_mover()
(in
InterfaceScoreCalculatorCreator
)
ClassicAbinitioAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
COARSE
(in
ResidueProperty
)
create_mover()
(in
LigandDesignCreator
)
ClassicAbinitioCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
coarse
(in
rosetta.core
)
create_mover()
(in
MinimizeBackboneCreator
)
ClassicFragmentMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
coarse_beadlj
(in
rosetta
)
create_mover()
(in
RandomConformersCreator
)
ClassicFragmentMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
coarse_beadlj
(in
ScoreType
)
create_mover()
(in
RotateCreator
)
ClassicFragmentMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
coarse_beadlj
(in
rosetta.core.scoring._core_scoring_
)
create_mover()
(in
RotatesCreator
)
ClassicMatchAlgorithm
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
coarse_beadlj
(in
rosetta.core.scoring
)
create_mover()
(in
SlideTogetherCreator
)
ClassicMatchAlgorithmAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
coarse_fa_atr
(in
rosetta
)
create_mover()
(in
StartFromCreator
)
ClassicMatchAlgorithmCAP
(in
rosetta.protocols.match.downstream._protocols_match_downstream_
)
coarse_fa_atr
(in
ScoreType
)
create_mover()
(in
TransformCreator
)
ClassicRelax
(in
rosetta.protocols.relax._protocols_relax_
)
coarse_fa_atr
(in
rosetta.core.scoring._core_scoring_
)
create_mover()
(in
TranslateCreator
)
ClassicRelaxAP
(in
rosetta.protocols.relax._protocols_relax_
)
coarse_fa_atr
(in
rosetta.core.scoring
)
create_mover()
(in
WriteLigandMolFileCreator
)
ClassicRelaxCAP
(in
rosetta.protocols.relax._protocols_relax_
)
coarse_fa_rep
(in
rosetta
)
create_mover()
(in
LoopMover_SlidingWindowCreator
)
ClassicRelaxCreator
(in
rosetta.protocols.relax._protocols_relax_
)
coarse_fa_rep
(in
ScoreType
)
create_mover()
(in
LoopmodelWrapperCreator
)
ClassicRelaxCreatorAP
(in
rosetta.protocols.relax._protocols_relax_
)
coarse_fa_rep
(in
rosetta.core.scoring._core_scoring_
)
create_mover()
(in
LoopBuilderCreator
)
ClassicRelaxCreatorCAP
(in
rosetta.protocols.relax._protocols_relax_
)
coarse_fa_rep
(in
rosetta.core.scoring
)
create_mover()
(in
LoopModelerCreator
)
classification()
(in
HeaderInformation
)
coarse_fa_sol
(in
rosetta
)
create_mover()
(in
LoopProtocolCreator
)
classify_base_pairs()
(in
rosetta.core.pose.rna._core_pose_rna_
)
coarse_fa_sol
(in
ScoreType
)
create_mover()
(in
MinimizationRefinerCreator
)
clean_frag_cache()
(in
FragmentIO
)
coarse_fa_sol
(in
rosetta.core.scoring._core_scoring_
)
create_mover()
(in
RepackingRefinerCreator
)
clean_jumps()
(in
FixTemplateJumpSetup
)
coarse_fa_sol
(in
rosetta.core.scoring
)
create_mover()
(in
RotamerTrialsRefinerCreator
)
clean_jumps()
(in
TemplateJumpSetup
)
coarse_rna
(in
rosetta.protocols
)
create_mover()
(in
LegacyKicSamplerCreator
)
clean_jumps()
(in
BaseJumpSetup
)
CoarseRNA_FragmentsAP
(in
rosetta.protocols.coarse_rna._protocols_coarse_rna_'
)
create_mover()
(in
PrepareForCentroidCreator
)
clean_jumps()
(in
JumpSelector
)
CoarseRNA_FragmentsCAP
(in
rosetta.protocols.coarse_rna._protocols_coarse_rna_'
)
create_mover()
(in
PrepareForFullatomCreator
)
clean_jumps()
(in
JumpSetup
)
CoarseRNA_LoopCloser
(in
rosetta.protocols.coarse_rna._protocols_coarse_rna_'
)
create_mover()
(in
LoopHashDiversifierCreator
)
clean_jumps()
(in
JumpsFromAllPairings
)
CoarseRNA_LoopCloserAP
(in
rosetta.protocols.coarse_rna._protocols_coarse_rna_'
)
create_mover()
(in
LoopHashMoverWrapperCreator
)
clean_jumps()
(in
ResiduePairJumpSetup
)
CoarseRNA_LoopCloserCAP
(in
rosetta.protocols.coarse_rna._protocols_coarse_rna_'
)
create_mover()
(in
FoldTreeFromLoopsCreator
)
clean_jumps()
(in
SheetBuilder
)
code_from_6bit()
(in
rosetta.utility._utility_
)
create_mover()
(in
CCDLoopClosureMoverCreator
)
clean_pose_store()
(in
ClusterBase
)
code_to_6bit()
(in
rosetta.utility._utility_
)
create_mover()
(in
LoopCMCreator
)
clean_residue_task()
(in
PackerTask
)
code_to_root_map()
(in
CarbohydrateInfo
)
create_mover()
(in
LoopMover_Perturb_CCDCreator
)
clean_residue_task()
(in
PackerTask_
)
coefficients()
(in
Polynomial_1d
)
create_mover()
(in
LoopMover_Perturb_KICCreator
)
clean_up()
(in
ABEGO_SS_Score
)
coefLoc()
(in
SO3coeffs
)
create_mover()
(in
LoopMover_Perturb_QuickCCDCreator
)
clean_up()
(in
AmbigCSScore
)
COFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
create_mover()
(in
LoopMover_Perturb_QuickCCD_MovesCreator
)
clean_up()
(in
AtomBasedConstraintsScore
)
COFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
create_mover()
(in
LoopMover_Refine_BackrubCreator
)
clean_up()
(in
AtomPairConstraintsScore
)
COFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
create_mover()
(in
LoopMover_Refine_CCDCreator
)
clean_up()
(in
CSScore
)
coil
(in
SecondaryStructureType
)
create_mover()
(in
LoopMover_Refine_KICCreator
)
clean_up()
(in
CachingScoringMethod
)
coil
(in
rosetta.protocols.loops.loop_closure.ccd._protocols_loops_loop_closure_ccd_
)
create_mover()
(in
LoopRefineInnerCycleContainerCreator
)
clean_up()
(in
DihedralConstraintsScore
)
coil
(in
rosetta.protocols.loops.loop_closure.ccd
)
create_mover()
(in
RepackTrialCreator
)
clean_up()
(in
DisulfideDistance
)
col()
(in
xyzMatrix_Real
)
create_mover()
(in
ShearMinCCDTrialCreator
)
clean_up()
(in
FragmentCrmsd
)
col()
(in
xyzMatrix_SSize
)
create_mover()
(in
SmallMinCCDTrialCreator
)
clean_up()
(in
FragmentCrmsdResDepth
)
col()
(in
xyzMatrix_Size
)
create_mover()
(in
MatcherMoverCreator
)
clean_up()
(in
FragmentDME
)
col()
(in
xyzMatrix_T_float_T
)
create_mover()
(in
ExtractSubposeMoverCreator
)
clean_up()
(in
FragmentScoreManager
)
col()
(in
xyzMatrix_double
)
create_mover()
(in
MatDesGreedyOptMutationMoverCreator
)
clean_up()
(in
GunnCostScore
)
col()
(in
xyzMatrix_float
)
create_mover()
(in
SchemePlaceMotifsMoverCreator
)
clean_up()
(in
HydrophobicityProfileSimilarity
)
col_x()
(in
xyzMatrix_Real
)
create_mover()
(in
SymDofMoverCreator
)
clean_up()
(in
HydrophobicitySimilarity
)
col_x()
(in
xyzMatrix_SSize
)
create_mover()
(in
CartesianMDCreator
)
clean_up()
(in
InterbondAngleScore
)
col_x()
(in
xyzMatrix_Size
)
create_mover()
(in
AddMPLigandMoverCreator
)
clean_up()
(in
JCoupling
)
col_x()
(in
xyzMatrix_T_float_T
)
create_mover()
(in
AddMembraneMoverCreator
)
clean_up()
(in
LAMBEGO_Similarity
)
col_x()
(in
xyzMatrix_double
)
create_mover()
(in
FlipMoverCreator
)
clean_up()
(in
MidPhiOut
)
col_x()
(in
xyzMatrix_float
)
create_mover()
(in
MembranePositionFromTopologyMoverCreator
)
clean_up()
(in
MidPsiOut
)
col_y()
(in
xyzMatrix_Real
)
create_mover()
(in
RotationMoverCreator
)
clean_up()
(in
PCS_FragDistance
)
col_y()
(in
xyzMatrix_SSize
)
create_mover()
(in
SetMembraneCenterMoverCreator
)
clean_up()
(in
PartialSecondarySimilarity
)
col_y()
(in
xyzMatrix_Size
)
create_mover()
(in
SetMembraneNormalMoverCreator
)
clean_up()
(in
Phi
)
col_y()
(in
xyzMatrix_T_float_T
)
create_mover()
(in
SetMembranePositionMoverCreator
)
clean_up()
(in
PhiPsiRmsd
)
col_y()
(in
xyzMatrix_double
)
create_mover()
(in
TransformIntoMembraneMoverCreator
)
clean_up()
(in
PhiPsiSquareWell
)
col_y()
(in
xyzMatrix_float
)
create_mover()
(in
TranslationMoverCreator
)
clean_up()
(in
ProfileScore
)
col_z()
(in
xyzMatrix_Real
)
create_mover()
(in
TranslationRotationMoverCreator
)
clean_up()
(in
ProfileScoreBlosum62
)
col_z()
(in
xyzMatrix_SSize
)
create_mover()
(in
SymmetricAddMembraneMoverCreator
)
clean_up()
(in
ProfileScoreDistWeight
)
col_z()
(in
xyzMatrix_Size
)
create_mover()
(in
VisualizeEmbeddingMoverCreator
)
clean_up()
(in
ProfileScoreL1
)
col_z()
(in
xyzMatrix_T_float_T
)
create_mover()
(in
VisualizeMembraneMoverCreator
)
clean_up()
(in
ProfileScoreStructL1
)
col_z()
(in
xyzMatrix_double
)
create_mover()
(in
MotifGraftCreator
)
clean_up()
(in
ProfileScoreSubMatrix
)
col_z()
(in
xyzMatrix_float
)
create_mover()
(in
MotifDnaPackerCreator
)
clean_up()
(in
Psi
)
collapse()
(in
MultiDimensionalHistogram
)
create_mover()
(in
DsspMoverCreator
)
clean_up()
(in
RDCScore
)
collect()
(in
HedgeArchive
)
create_mover()
(in
IfMoverCreator
)
clean_up()
(in
RamaScore
)
collect_all_inverse_rotamers()
(in
InvrotTarget
)
create_mover()
(in
IteratedConvergenceMoverCreator
)
clean_up()
(in
ScoreEValuator
)
collect_all_inverse_rotamers()
(in
InvrotTree
)
create_mover()
(in
MoverCreator
)
clean_up()
(in
SecondarySimilarity
)
collect_all_inverse_rotamers()
(in
InvrotTreeNode
)
create_mover()
(in
PyMolMoverCreator
)
clean_up()
(in
SolventAccessibility
)
collect_all_inverse_rotamers()
(in
InvrotTreeNodeBase
)
create_mover()
(in
RampingMoverCreator
)
clean_up()
(in
TalosSSSimilarity
)
collect_fragment_atom_ids()
(in
DensityMorphingMover
)
create_mover()
(in
RandomMoverCreator
)
clean_up()
(in
TorsionBinSimilarity
)
collect_HN_S2_and_EF()
(in
PDB
)
create_mover()
(in
NcbbDockDesignProtocolCreator
)
cleanup()
(in
rosetta.protocols.stepwise.setup._protocols_stepwise_setup_
)
collision_check_id_2_restype_id()
(in
LigandConformer
)
create_mover()
(in
OopCreatorMoverCreator
)
clear()
(in
DataCache_T_basic_datacache_CacheableData_T
)
colonyE()
(in
HotspotStubSet
)
create_mover()
(in
OopDockDesignProtocolCreator
)
clear()
(in
LazyResourceManager
)
cols()
(in
DP_Matrix
)
create_mover()
(in
NormalModeMinimizerCreator
)
clear()
(in
ResourceManager
)
cols()
(in
xyzMatrix_Real
)
create_mover()
(in
SetupPoissonBoltzmannPotentialCreator
)
Clear()
(in
QuatSet
)
cols()
(in
xyzMatrix_SSize
)
create_mover()
(in
AddChainBreakCreator
)
clear()
(in
ResidueSelector
)
cols()
(in
xyzMatrix_Size
)
create_mover()
(in
AddSidechainConstraintsToHotspotsCreator
)
clear()
(in
Conformation
)
cols()
(in
xyzMatrix_T_float_T
)
create_mover()
(in
BackrubDDMoverCreator
)
clear()
(in
Frame
)
cols()
(in
xyzMatrix_double
)
create_mover()
(in
BestHotspotCstMoverCreator
)
clear()
(in
Book_T_core_fragment_picking_old_vall_VallResidues_T
)
cols()
(in
xyzMatrix_float
)
create_mover()
(in
BuildAlaPoseCreator
)
clear()
(in
Library_T_core_fragment_picking_old_vall_VallSections_T
)
Column
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
create_mover()
(in
DesignMinimizeHbondsCreator
)
clear()
(in
AtomID_Map_T_bool_T
)
ColumnAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
create_mover()
(in
DisulfideMoverCreator
)
clear()
(in
AtomID_Map_T_core_id_AtomID_T
)
ColumnCAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
create_mover()
(in
DockAndRetrieveSidechainsCreator
)
clear()
(in
AtomID_Map_T_double_T
)
columns()
(in
ForeignKey
)
create_mover()
(in
DockWithHotspotMoverCreator
)
clear()
(in
AtomID_Map_T_numeric_xyzVector_T_double_T__T
)
columns()
(in
Index
)
create_mover()
(in
FavorNativeResiduePreCycleCreator
)
clear()
(in
NamedAtomID_Map_T_core_id_NamedAtomID_T
)
columns()
(in
PrimaryKey
)
create_mover()
(in
FavorNonNativeResiduePreCycleCreator
)
clear()
(in
SequenceMapping
)
com()
(in
HelicalFragment
)
create_mover()
(in
HotspotDisjointedFoldTreeMoverCreator
)
clear()
(in
DesignContrast
)
CoM()
(in
FingerprintBase
)
create_mover()
(in
HotspotHasherMoverCreator
)
clear()
(in
SilentFileData
)
COMAS()
(in
rosetta.numeric.model_quality._numeric_model_quality_
)
create_mover()
(in
InterfaceRecapitulationMoverCreator
)
clear()
(in
AtomTree
)
COMB
(in
rosetta.protocols.stepwise.sampler
)
create_mover()
(in
LoopFinderCreator
)
clear()
(in
FoldTree
)
COMB
(in
rosetta.protocols.stepwise.sampler._protocols_stepwise_sampler_
)
create_mover()
(in
LoopLengthChangeCreator
)
clear()
(in
MoveMap
)
COMB
(in
StepWiseSamplerType
)
create_mover()
(in
LoopMoverFromCommandLineCreator
)
clear()
(in
ResidueCoordinateChangeList
)
combine_constraints()
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
create_mover()
(in
LoopOverCreator
)
clear()
(in
WaterPackingInfo
)
combine_exclude_file()
(in
ConstraintPreparer
)
create_mover()
(in
LoopRemodelCreator
)
clear()
(in
TaskFactory
)
combine_exclude_res()
(in
ConstraintPreparer
)
create_mover()
(in
MapHotspotCreator
)
clear()
(in
DisallowIfNonnative
)
combine_long_loop_mode()
(in
StepWiseRNA_ModelerOptions
)
create_mover()
(in
PatchdockTransformCreator
)
clear()
(in
DisallowIfNonnativeRLT
)
combine_movemaps_post_insertion()
(in
rosetta.protocols.grafting._protocols_grafting_
)
create_mover()
(in
PeptideStapleDesignMoverCreator
)
clear()
(in
PreventRepacking
)
combine_names()
(in
rosetta.utility.file._utility_file_
)
create_mover()
(in
PlaceOnLoopCreator
)
clear()
(in
RestrictResidueToRepacking
)
combine_ratio()
(in
ConstraintPreparer
)
create_mover()
(in
PlaceSimultaneouslyMoverCreator
)
clear()
(in
PDBPoseMap
)
combine_sequence_mappings()
(in
rosetta.core.id._core_id_
)
create_mover()
(in
PlaceStubMoverCreator
)
clear()
(in
Pose
)
Combine_Tags_Info
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
create_mover()
(in
PlacementAuctionMoverCreator
)
clear()
(in
ObserverCache
)
Combine_Tags_InfoAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
create_mover()
(in
PlacementMinimizationMoverCreator
)
clear()
(in
SpecialSegmentsObserver
)
Combine_Tags_InfoCAP
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
create_mover()
(in
PrepackMoverCreator
)
clear()
(in
PoseMetricContainer
)
combine_two_poses()
(in
rosetta.protocols.seeded_abinitio._protocols_seeded_abinitio_
)
create_mover()
(in
ProteinInterfaceMultiStateDesignMoverCreator
)
clear()
(in
CenHBPotential
)
combine_xyz_lists()
(in
NonPlaidFingerprint
)
create_mover()
(in
RandomMutationCreator
)
clear()
(in
EMapVector
)
CombineChainsMover
(in
rosetta.protocols.domain_assembly._protocols_domain_assembly_
)
create_mover()
(in
RepackMinimizeCreator
)
clear()
(in
Energies
)
CombineChainsMoverAP
(in
rosetta.protocols.domain_assembly._protocols_domain_assembly_
)
create_mover()
(in
SaveAndRetrieveSidechainsCreator
)
clear()
(in
Hairpins
)
CombineChainsMoverCAP
(in
rosetta.protocols.domain_assembly._protocols_domain_assembly_
)
create_mover()
(in
SetAtomTreeCreator
)
clear()
(in
NeighborList
)
CombinedConstraintEvaluator
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
SetTemperatureFactorCreator
)
clear()
(in
SmoothScoreTermCoeffs
)
CombinedConstraintEvaluatorAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
SetupHotspotConstraintsLoopsMoverCreator
)
clear()
(in
Strands
)
CombinedConstraintEvaluatorCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
SetupHotspotConstraintsMoverCreator
)
clear()
(in
TMscoreStore
)
CombinedConstraintEvaluatorCreator
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
ShoveResidueMoverCreator
)
clear()
(in
ConstraintSet
)
CombinedConstraintEvaluatorCreatorAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
SpinMoverCreator
)
clear()
(in
Constraints
)
CombinedConstraintEvaluatorCreatorCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
SubroutineMoverCreator
)
clear()
(in
ResidueConstraints
)
CombinedFilter
(in
rosetta.protocols.filters._protocols_filters_
)
create_mover()
(in
TaskAwareCstsCreator
)
clear()
(in
HBondSet
)
CombinedFilterAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_mover()
(in
TopologyBrokerMoverCreator
)
clear()
(in
XformScore
)
CombinedFilterCAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_mover()
(in
TryRotamersCreator
)
clear()
(in
DP_Matrix
)
CombinedFilterCreator
(in
rosetta.protocols.filters._protocols_filters_
)
create_mover()
(in
VLBCreator
)
clear()
(in
SequenceAlignment
)
CombinedFilterCreatorAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_mover()
(in
IdealizeHelicesMoverCreator
)
clear()
(in
IntervalSet_T_double_T
)
CombinedFilterCreatorCAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_mover()
(in
MakeStarTopologyMoverCreator
)
clear()
(in
xyzMatrix_Real
)
CombinedTaskOperation
(in
rosetta.protocols.flxbb._protocols_flxbb_
)
create_mover()
(in
OptimizeThreadingMoverCreator
)
clear()
(in
xyzMatrix_SSize
)
CombinedTaskOperationAP
(in
rosetta.protocols.flxbb._protocols_flxbb_
)
create_mover()
(in
AtomCoordinateCstMoverCreator
)
clear()
(in
xyzMatrix_Size
)
CombinedTaskOperationCAP
(in
rosetta.protocols.flxbb._protocols_flxbb_
)
create_mover()
(in
ClassicRelaxCreator
)
clear()
(in
xyzMatrix_T_float_T
)
CombinePoseMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
create_mover()
(in
FastRelaxCreator
)
clear()
(in
xyzMatrix_double
)
CombinePoseMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
create_mover()
(in
LocalRelaxCreator
)
clear()
(in
xyzMatrix_float
)
CombinePoseMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
create_mover()
(in
MPFastRelaxMoverCreator
)
clear()
(in
xyzTriple_Real
)
COMCoordinateConstraint
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
RigidBodyPerturbNoCenterMoverCreator
)
clear()
(in
xyzTriple_SSize
)
COMCoordinateConstraintAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
RigidBodyTransMoverCreator
)
clear()
(in
xyzTriple_Size
)
COMCoordinateConstraintCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
create_mover()
(in
RollMoverCreator
)
clear()
(in
xyzTriple_double
)
COMM_REDUCE_SIZE
(in
rosetta.basic
)
create_mover()
(in
UniformRigidBodyCMCreator
)
clear()
(in
xyzTriple_float
)
COMM_REDUCE_SIZE
(in
rosetta.basic._basic_
)
create_mover()
(in
UniformRigidBodyMoverCreator
)
clear()
(in
xyzVector_Real
)
COMM_REDUCE_SIZE
(in
ProfTag
)
create_mover()
(in
AdditionalOutputWrapperCreator
)
clear()
(in
xyzVector_SSize
)
COMMA
(in
rosetta.numeric.expression_parser
)
create_mover()
(in
MultipleOutputWrapperCreator
)
clear()
(in
xyzVector_Size
)
COMMA
(in
rosetta.numeric.expression_parser._numeric_expression_parser_
)
create_mover()
(in
MultiplePoseMoverCreator
)
clear()
(in
xyzVector_double
)
COMMA
(in
TokenType
)
create_mover()
(in
ParsedProtocolCreator
)
clear()
(in
xyzVector_float
)
command_string()
(in
ResidueLevelTask
)
create_mover()
(in
SavePoseMoverCreator
)
clear()
(in
WeightedSampler
)
command_string()
(in
ResidueLevelTask_
)
create_mover()
(in
RotamerRecoveryMoverCreator
)
clear()
(in
AbrelaxMover
)
commands_for_residue()
(in
ResfileContents
)
create_mover()
(in
CAcstGeneratorCreator
)
clear()
(in
PeptideDeriverFilter
)
comment()
(in
SequenceAlignment
)
create_mover()
(in
CloseFoldCreator
)
clear()
(in
PeptideDeriverOutputterContainer
)
comment_begin()
(in
rosetta.core.pack.task._core_pack_task_
)
create_mover()
(in
CoordinateCstCreator
)
clear()
(in
CDRClusterSet
)
comment_exists()
(in
PoseComment
)
create_mover()
(in
DefineMovableLoopsCreator
)
clear()
(in
HierarchicalLevel
)
comment_from_line()
(in
SilentStruct
)
create_mover()
(in
GrowPeptidesCreator
)
clear()
(in
Pool_RMSD
)
comment_line()
(in
SilentFileData
)
create_mover()
(in
SeedFoldTreeCreator
)
clear()
(in
Cluster
)
comment_lines()
(in
SilentFileData
)
create_mover()
(in
SeedSetupMoverCreator
)
clear()
(in
GatherPosesMover
)
comment_name()
(in
PoseComment
)
create_mover()
(in
SegmentHybridizerCreator
)
clear()
(in
ExposedHydrophobicsFilter
)
comment_value()
(in
PoseComment
)
create_mover()
(in
SwapSegmentCreator
)
clear()
(in
DnaChains
)
comments()
(in
RDAT
)
create_mover()
(in
AddChainMoverCreator
)
clear()
(in
DockingHighResFilter
)
comments()
(in
SequenceAlignment
)
create_mover()
(in
AddConstraintsToCurrentConformationMoverCreator
)
clear()
(in
DockingLowResFilter
)
commit
(in
rosetta.version'
)
create_mover()
(in
AddJobPairDataCreator
)
clear()
(in
ProtectedConformation
)
commit_alt_bb_substitution()
(in
MinimalistFlexbbNode
)
create_mover()
(in
AlignChainMoverCreator
)
clear()
(in
MetaPoseEvaluator
)
commit_change()
(in
SimpleEdge
)
create_mover()
(in
BBGaussianMoverCreator
)
clear()
(in
CalculatorFilter
)
commit_change()
(in
SimpleInteractionGraph
)
create_mover()
(in
BoltzmannRotamerMoverCreator
)
clear()
(in
CombinedFilter
)
commit_change()
(in
SimpleNode
)
create_mover()
(in
ChangeAndResetFoldTreeMoverCreator
)
clear()
(in
CompoundFilter
)
commit_change_no_res_pointer_update()
(in
SimpleNode
)
create_mover()
(in
ClearConstraintsMoverCreator
)
clear()
(in
ContingentFilter
)
commit_considered_backbone_move()
(in
FlexbbInteractionGraph
)
create_mover()
(in
ConsensusDesignMoverCreator
)
clear()
(in
FalseFilter
)
commit_considered_substitution()
(in
DensePDInteractionGraph
)
create_mover()
(in
ConstraintSetMoverCreator
)
clear()
(in
Filter
)
commit_considered_substitution()
(in
DensePDNode
)
create_mover()
(in
ContingentAcceptMoverCreator
)
clear()
(in
FilterCollection
)
commit_considered_substitution()
(in
DoubleDensePDInteractionGraph
)
create_mover()
(in
CoupledMoverCreator
)
clear()
(in
IfThenFilter
)
commit_considered_substitution()
(in
DoubleDensePDNode
)
create_mover()
(in
CutChainMoverCreator
)
clear()
(in
MoveBeforeFilter
)
commit_considered_substitution()
(in
DoubleLazyInteractionGraph
)
create_mover()
(in
DeleteChainsMoverCreator
)
clear()
(in
ReplicateFilter
)
commit_considered_substitution()
(in
DoubleLazyNode
)
create_mover()
(in
DisulfideInsertionMoverCreator
)
clear()
(in
StochasticFilter
)
commit_considered_substitution()
(in
FASTERInteractionGraph
)
create_mover()
(in
DumpPdbCreator
)
clear()
(in
TimeFilter
)
commit_considered_substitution()
(in
FASTERNode
)
create_mover()
(in
ExtendedPoseMoverCreator
)
clear()
(in
TrueFilter
)
commit_considered_substitution()
(in
InteractionGraphBase
)
create_mover()
(in
FavorSequenceProfileCreator
)
clear()
(in
CoreDunbrackFilter
)
commit_considered_substitution()
(in
LazyInteractionGraph
)
create_mover()
(in
FavorSymmetricSequenceCreator
)
clear()
(in
FragQualFilter
)
commit_considered_substitution()
(in
LazyNode
)
create_mover()
(in
FindConsensusSequenceCreator
)
clear()
(in
HSSTripletFilter
)
commit_considered_substitution()
(in
LinearMemNode
)
create_mover()
(in
ForceDisulfidesMoverCreator
)
clear()
(in
HelixKinkFilter
)
commit_considered_substitution()
(in
LinearMemoryInteractionGraph
)
create_mover()
(in
GenericMonteCarloMoverCreator
)
clear()
(in
HelixPairingFilter
)
commit_considered_substitution()
(in
PDInteractionGraph
)
create_mover()
(in
LoadPDBMoverCreator
)
clear()
(in
InterlockingAromaFilter
)
commit_considered_substitution()
(in
PDNode
)
create_mover()
(in
LoadUnboundRotMoverCreator
)
clear()
(in
NcontactsFilter
)
commit_considered_substitution()
(in
SymmLinearMemNode
)
create_mover()
(in
MSDMoverCreator
)
clear()
(in
ParallelBetaPairingPreferenceFilter
)
commit_considered_substitution()
(in
SymmLinearMemoryInteractionGraph
)
create_mover()
(in
MakePolyXMoverCreator
)
clear()
(in
SecondaryStructureCountFilter
)
commit_considered_substitution()
(in
SymmMinimalistInteractionGraph
)
create_mover()
(in
MembraneTopologyCreator
)
clear()
(in
SecondaryStructureFilter
)
commit_considered_substitution()
(in
SymmMinimalistNode
)
create_mover()
(in
MinMoverCreator
)
clear()
(in
SecondaryStructureHasResidueFilter
)
commit_considered_substitution()
(in
MinimalistFlexbbInteractionGraph
)
create_mover()
(in
MinPackMoverCreator
)
clear()
(in
SheetTopologyFilter
)
commit_considered_substitution()
(in
MinimalistFlexbbNode
)
create_mover()
(in
ModifyVariantTypeMoverCreator
)
clear()
(in
BB_Pos
)
commit_id
(in
rosetta.version'
)
create_mover()
(in
MonteCarloRecoverCreator
)
clear()
(in
BetaAlphaBetaMotifSet
)
commit_relaxation()
(in
FASTERInteractionGraph
)
create_mover()
(in
MonteCarloResetCreator
)
clear()
(in
HSSTripletSet
)
comparative_modeling
(in
rosetta.protocols
)
create_mover()
(in
MonteCarloTestCreator
)
clear()
(in
HelixPairingSet
)
comparator()
(in
AgglomerativeHierarchicalClusterer
)
create_mover()
(in
MutateResidueCreator
)
clear()
(in
SheetSet
)
comparator()
(in
AverageLinkClusterer
)
create_mover()
(in
PDBReloadMoverCreator
)
clear()
(in
StrandPairingSet
)
comparator()
(in
CompleteLinkClusterer
)
create_mover()
(in
PSSM2BfactorMoverCreator
)
clear()
(in
BuildManager
)
comparator()
(in
SingleLinkClusterer
)
create_mover()
(in
PackRotamersMoverCreator
)
clear()
(in
BoundedCollector_T_protocols_frag_picker_CompareTotalScore_T
)
compare()
(in
BackboneSegment
)
create_mover()
(in
PeriodicBoxMoverCreator
)
clear()
(in
CandidatesCollector
)
compare_atom_coordinates()
(in
rosetta.core.pose._core_pose_
)
create_mover()
(in
RandomOmegaFlipMoverCreator
)
clear()
(in
GrabAllCollector
)
compare_base_bin
(in
rosetta.protocols.stepwise.modeler.rna.rigid_body._protocols_stepwise_modeler_rna_rigid_body_
)
create_mover()
(in
RandomTorsionMoverCreator
)
clear()
(in
ABEGO_SS_Pool
)
compare_base_binAP
(in
rosetta.protocols.stepwise.modeler.rna.rigid_body._protocols_stepwise_modeler_rna_rigid_body_
)
create_mover()
(in
RepackSidechainsMoverCreator
)
clear()
(in
QuotaCollector
)
compare_base_binCAP
(in
rosetta.protocols.stepwise.modeler.rna.rigid_body._protocols_stepwise_modeler_rna_rigid_body_
)
create_mover()
(in
RepeatPropagationMoverCreator
)
clear()
(in
QuotaPool
)
compare_binary_protein_silent_struct()
(in
rosetta.core.pose._core_pose_
)
create_mover()
(in
ReportEffectivePKACreator
)
clear()
(in
SecondaryStructurePool
)
compare_int_pair
(in
rosetta.protocols.stepwise.modeler.rna.rigid_body._protocols_stepwise_modeler_rna_rigid_body_
)
create_mover()
(in
ResetBaselineMoverCreator
)
clear()
(in
AdaptiveScoreHistogram
)
compare_int_pairAP
(in
rosetta.protocols.stepwise.modeler.rna.rigid_body._protocols_stepwise_modeler_rna_rigid_body_
)
create_mover()
(in
ResidueTypeConstraintMoverCreator
)
clear()
(in
FragLib
)
compare_int_pairCAP
(in
rosetta.protocols.stepwise.modeler.rna.rigid_body._protocols_stepwise_modeler_rna_rigid_body_
)
create_mover()
(in
RingConformationMoverCreator
)
clear()
(in
SingleResidueTorsionFragmentLibrary
)
compare_motif2scaffold_data_by_scaffold_low2high()
(in
rosetta.protocols.motif_grafting.movers._protocols_motif_grafting_movers_
)
create_mover()
(in
RotamerTrialsMinMoverCreator
)
clear()
(in
TorsionFragmentLibrary
)
compare_RNA_char()
(in
rosetta.protocols.farna._protocols_farna_
)
create_mover()
(in
RotamerTrialsMoverCreator
)
clear()
(in
HotspotStubSet
)
compare_RNA_secstruct()
(in
rosetta.protocols.farna._protocols_farna_
)
create_mover()
(in
SaneMinMoverCreator
)
clear()
(in
FragmentLookupFilter
)
compare_to_ref()
(in
SymUnsatHbondFilter
)
create_mover()
(in
ScoreMoverCreator
)
clear()
(in
JD2ResourceManager
)
CompareByScoreCombination
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
SequenceProfileMoverCreator
)
clear()
(in
JumpSetup
)
CompareByScoreCombinationAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
SetTorsionCreator
)
clear()
(in
ResiduePairJumpSetup
)
CompareByScoreCombinationCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
ShearMoverCreator
)
clear()
(in
PerturberSet
)
compareCoverage()
(in
ComparisonGrid
)
create_mover()
(in
ShortBackrubMoverCreator
)
clear()
(in
AtomCountFilter
)
CompareKDPoints
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
create_mover()
(in
SmallMoverCreator
)
clear()
(in
ChainExistsFilter
)
CompareKDPointsAP
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
create_mover()
(in
SuperimposeMoverCreator
)
clear()
(in
CompleteConnectionsFilter
)
CompareKDPointsCAP
(in
rosetta.numeric.kdtree._numeric_kdtree_
)
create_mover()
(in
SwitchChainOrderMoverCreator
)
clear()
(in
HBondAcceptorFilter
)
CompareQueryPosition
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
SwitchResidueTypeSetMoverCreator
)
clear()
(in
HBondDonorFilter
)
CompareQueryPositionAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
TaskAwareMinMoverCreator
)
clear()
(in
HeavyAtomFilter
)
CompareQueryPositionCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
TumbleCreator
)
clear()
(in
MolarMassFilter
)
compareRef_fxn()
(in
rosetta.protocols.sparta._protocols_sparta_
)
create_mover()
(in
VirtualRootMoverCreator
)
clear()
(in
MolecularMassFilter
)
CompareScoreComponent
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
ddGCreator
)
clear()
(in
LoopMoverGroup
)
CompareScoreComponentAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
InitializeByBinsCreator
)
clear()
(in
Loops
)
CompareScoreComponentCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
PerturbByBinsCreator
)
clear()
(in
Bool3DGrid
)
CompareTags
(in
rosetta.protocols.jd2._protocols_jd2_
)
create_mover()
(in
JumpRotamerSidechainMoverCreator
)
clear()
(in
ActiveSiteGrid
)
CompareTagsAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
create_mover()
(in
PerturbChiSidechainMoverCreator
)
clear()
(in
ClashCheckFilter
)
CompareTagsCAP
(in
rosetta.protocols.jd2._protocols_jd2_
)
create_mover()
(in
PerturbRotamerSidechainMoverCreator
)
clear()
(in
GetRBDOFValues
)
CompareTotalScore
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
SetChiMoverCreator
)
clear()
(in
InterfacePackingFilter
)
CompareTotalScoreAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
SidechainMCMoverCreator
)
clear()
(in
OligomericAverageDegreeFilter
)
CompareTotalScoreCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_mover()
(in
SidechainMoverCreator
)
clear()
(in
SymUnsatHbondFilter
)
ComparingTracer
(in
rosetta.basic._basic_
)
create_mover()
(in
DetectSymmetryMoverCreator
)
clear()
(in
CompositionMover
)
ComparingTracerAP
(in
rosetta.basic._basic_
)
create_mover()
(in
ExtractAsymmetricPoseMoverCreator
)
clear()
(in
MoverContainer
)
ComparingTracerCAP
(in
rosetta.basic._basic_
)
create_mover()
(in
ExtractAsymmetricUnitMoverCreator
)
clear()
(in
MoverStatistics
)
ComparisonGrid
(in
rosetta.protocols.pockets._protocols_pockets_
)
create_mover()
(in
SetupForSymmetryMoverCreator
)
clear()
(in
PDBDumpMover
)
ComparisonGridAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
create_mover()
(in
SetupNCSMoverCreator
)
clear()
(in
Scheduler
)
ComparisonGridCAP
(in
rosetta.protocols.pockets._protocols_pockets_
)
create_mover()
(in
SymMinMoverCreator
)
clear()
(in
TopEntitySet
)
CompassScoringScheme
(in
rosetta.core.sequence._core_sequence_
)
create_mover()
(in
SymPackRotamersMoverCreator
)
clear()
(in
CClusterSet
)
CompassScoringSchemeAP
(in
rosetta.core.sequence._core_sequence_
)
create_mover()
(in
SymRotamerTrialsMoverCreator
)
clear()
(in
PClusterSet
)
CompassScoringSchemeCAP
(in
rosetta.core.sequence._core_sequence_
)
create_mover()
(in
TaskAwareSymMinMoverCreator
)
clear()
(in
PocketGrid
)
compatibility_check()
(in
BuildManager
)
create_mover()
(in
SymDockProtocolCreator
)
clear()
(in
AtomicContactCountFilter
)
compatible()
(in
AlternativePairings
)
create_mover()
(in
SymFoldandDockMoveRbJumpMoverCreator
)
clear()
(in
AverageDegreeFilter
)
compatible()
(in
PairingStatEntry
)
create_mover()
(in
SymFoldandDockRbTrialMoverCreator
)
clear()
(in
BindingStrainFilter
)
compatible()
(in
DownstreamBuilder
)
create_mover()
(in
SymFoldandDockSlideTrialMoverCreator
)
clear()
(in
BoltzmannFilter
)
compatible()
(in
LigandConformerBuilder
)
create_mover()
(in
MPSymDockMoverCreator
)
clear()
(in
ClashWithTargetFilter
)
compatible()
(in
RigidLigandBuilder
)
create_mover()
(in
StoreCombinedStoredTasksMoverCreator
)
clear()
(in
DesignableResiduesFilter
)
compatible()
(in
OriginalBackboneBuildPoint
)
create_mover()
(in
StoreCompoundTaskMoverCreator
)
clear()
(in
DisulfideFilter
)
compatible()
(in
ProteinUpstreamBuilder
)
create_mover()
(in
StoreTaskMoverCreator
)
clear()
(in
FNatFilter
)
compatible()
(in
ScaffoldBuildPoint
)
create_new_bump_grid_for_bb()
(in
BumpGrid
)
clear()
(in
FilterScanFilter
)
compatible()
(in
UpstreamBuilder
)
create_new_edge()
(in
InteractionGraphBase
)
clear()
(in
HbondsToAtomFilter
)
compatible_restype()
(in
EnzCstTemplateRes
)
create_new_node()
(in
InteractionGraphBase
)
clear()
(in
HbondsToResidueFilter
)
compatible_with()
(in
BuildInstruction
)
create_new_parameters_set()
(in
Conformation
)
clear()
(in
IRmsdFilter
)
complete()
(in
GeneticAlgorithm
)
create_new_parameters_set()
(in
SymmetricConformation
)
clear()
(in
InterfaceHolesFilter
)
complete()
(in
GeneticAlgorithmBase
)
create_new_parameters_set()
(in
ProtectedConformation
)
clear()
(in
LRmsdFilter
)
complete_partial_state_assignment()
(in
FASTERNode
)
create_new_submotif()
(in
SubMotifLibrary
)
clear()
(in
RelativeSegmentFilter
)
complete_partial_state_assignment()
(in
MinimalistFlexbbNode
)
create_options()
(in
DatabaseSessionOptionsCreator
)
clear()
(in
RmsdFilter
)
complete_state_assignment()
(in
DoubleLazyNode
)
create_options()
(in
ResourceOptionsCreator
)
clear()
(in
RmsdSimpleFilter
)
complete_state_assignment()
(in
LazyNode
)
create_options()
(in
ResidueLoaderOptionsCreator
)
clear()
(in
SSamountFilter
)
complete_state_assignment()
(in
LinearMemNode
)
create_options()
(in
SymmDataOptionsCreator
)
clear()
(in
SequenceRecoveryFilter
)
complete_state_assignment()
(in
SymmLinearMemNode
)
create_options()
(in
ImportPoseOptionsCreator
)
clear()
(in
SpecificResiduesNearInterfaceFilter
)
complete_state_assignment()
(in
SymmMinimalistNode
)
create_options()
(in
SilentFileOptionsCreator
)
clear()
(in
StubScoreFilter
)
CompleteConnectionsFilter
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_options()
(in
ElectronDensityOptionsCreator
)
clear()
(in
StubScoreLoopsFilter
)
CompleteConnectionsFilterAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_options()
(in
FiberDiffractionOptionsCreator
)
clear()
(in
Torsion
)
CompleteConnectionsFilterCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_options()
(in
LoopHashLibraryOptionsCreator
)
clear()
(in
PlacementAuctionMover
)
CompleteConnectionsFilterCreator
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_options()
(in
LoopsFileOptionsCreator
)
clear()
(in
ParsedProtocol
)
CompleteConnectionsFilterCreatorAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_options()
(in
LipoFileOptionsCreator
)
clear()
(in
AbinitioBaseFilter
)
CompleteConnectionsFilterCreatorCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_options()
(in
SpanFileOptionsCreator
)
clear()
(in
AlaScan
)
completed()
(in
Job
)
create_options()
(in
SurfaceVectorOptionsCreator
)
clear()
(in
AngleToVector
)
CompleteLinkClusterer
(in
rosetta.numeric._numeric_
)
create_oriented_water_rotamer()
(in
rosetta.core.pack.rotamer_set._core_pack_rotamer_set_
)
clear()
(in
AtomicContactFilter
)
CompleteLinkClustererAP
(in
rosetta.numeric._numeric_
)
create_output_upstream_pose()
(in
PDBWriter
)
clear()
(in
AtomicDistanceFilter
)
CompleteLinkClustererCAP
(in
rosetta.numeric._numeric_
)
create_packer_graph()
(in
rosetta.core.pack._core_pack_
)
clear()
(in
AveragePathLengthFilter
)
component()
(in
DecomposeAndReweightEnergiesCalculator
)
create_packer_task()
(in
TaskFactory
)
clear()
(in
BuriedUnsatHbondFilter
)
components
(in
rosetta.protocols.forge
)
create_parser()
(in
JobDistributorFactory
)
clear()
(in
COFilter
)
components_moved_by_jump()
(in
SymmData
)
create_pddf()
(in
PDDFEnergy
)
clear()
(in
ConservedPosMutationFilter
)
ComposeSearchPatterns
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
create_position_data()
(in
OptEPositionDataFactory
)
clear()
(in
ConstraintScoreCutoffFilter
)
ComposeSearchPatternsAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
create_processor()
(in
ProcessorFactory
)
clear()
(in
DdGScan
)
ComposeSearchPatternsCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
create_protocol()
(in
RRProtocolCreator
)
clear()
(in
DdgFilter
)
CompositeFragmentSelector
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_protocol()
(in
RRProtocolMinPackCreator
)
clear()
(in
DeltaFilter
)
CompositeFragmentSelectorAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_protocol()
(in
RRProtocolMoverCreator
)
clear()
(in
DisulfideEntropyFilter
)
CompositeFragmentSelectorCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
create_protocol()
(in
RRProtocolPackRotamersCreator
)
clear()
(in
DomainInterfaceFilter
)
CompositeScoringScheme
(in
rosetta.core.sequence._core_sequence_
)
create_protocol()
(in
RRProtocolRTMinCreator
)
clear()
(in
EnergyPerResidueFilter
)
CompositeScoringSchemeAP
(in
rosetta.core.sequence._core_sequence_
)
create_protocol()
(in
RRProtocolReferenceStructureCreator
)
clear()
(in
ExpiryFilter
)
CompositeScoringSchemeCAP
(in
rosetta.core.sequence._core_sequence_
)
create_protocol()
(in
RRProtocolRelaxCreator
)
clear()
(in
FileExistFilter
)
CompositeSequence
(in
rosetta.core.sequence._core_sequence_
)
create_protocol()
(in
RRProtocolRotamerTrialsCreator
)
clear()
(in
FileRemoveFilter
)
CompositeSequenceAP
(in
rosetta.core.sequence._core_sequence_
)
create_rdf_function()
(in
RDFBinaryHbondCreator
)
clear()
(in
GeometryFilter
)
CompositeSequenceCAP
(in
rosetta.core.sequence._core_sequence_
)
create_rdf_function()
(in
RDFBinaryOrbitalFunctionCreator
)
clear()
(in
HolesFilter
)
CompositeSequenceCreator
(in
rosetta.core.sequence._core_sequence_
)
create_rdf_function()
(in
RDFChargeCreator
)
clear()
(in
InterRepeatContactFilter
)
CompositeSequenceCreatorAP
(in
rosetta.core.sequence._core_sequence_
)
create_rdf_function()
(in
RDFElecCreator
)
clear()
(in
InterfaceBindingEnergyDensityFilter
)
CompositeSequenceCreatorCAP
(in
rosetta.core.sequence._core_sequence_
)
create_rdf_function()
(in
RDFEtableCreator
)
clear()
(in
InterfaceSasaFilter
)
CompositionMover
(in
rosetta.protocols.moves._protocols_moves_
)
create_rdf_function()
(in
RDFFunctionCreator
)
clear()
(in
IntraRepeatContactFilter
)
CompositionMoverAP
(in
rosetta.protocols.moves._protocols_moves_
)
create_rdf_function()
(in
RDFHbondCreator
)
clear()
(in
LeastNativeLike9merFilter
)
CompositionMoverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
create_rdf_function()
(in
RDFOrbitalFunctionCreator
)
clear()
(in
MotifScoreFilter
)
compound_in_progress()
(in
HeaderInformation
)
create_reporter()
(in
PosePropertyReporterCreator
)
clear()
(in
MultipleSigmoids
)
compound_token_to_string()
(in
HeaderInformation
)
create_reporter()
(in
RRReporterCreator
)
clear()
(in
MutationsFilter
)
CompoundDesignableTask()
(in
StoreCompoundTaskMover
)
create_reporter()
(in
RRReporterHumanCreator
)
clear()
(in
NMerPSSMEnergyFilter
)
CompoundFilter
(in
rosetta.protocols.filters._protocols_filters_
)
create_reporter()
(in
RRReporterSQLiteCreator
)
clear()
(in
NMerSVMEnergyFilter
)
CompoundFilterAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_reporter()
(in
RRReporterSimpleCreator
)
clear()
(in
NeighborTypeFilter
)
CompoundFilterCAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_res_filter()
(in
AllResFilterCreator
)
clear()
(in
NetChargeFilter
)
CompoundFilterCreator
(in
rosetta.protocols.filters._protocols_filters_
)
create_res_filter()
(in
AnyResFilterCreator
)
clear()
(in
NonSequentialNeighborsFilter
)
CompoundFilterCreatorAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_res_filter()
(in
ChainIsCreator
)
clear()
(in
Operator
)
CompoundFilterCreatorCAP
(in
rosetta.protocols.filters._protocols_filters_
)
create_res_filter()
(in
ChainIsntCreator
)
clear()
(in
PDDFScoreFilter
)
CompoundInterpolator
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
create_res_filter()
(in
NoResFilterCreator
)
clear()
(in
PackStatFilter
)
CompoundInterpolatorAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
create_res_filter()
(in
ResFilterCreator
)
clear()
(in
PackerNeighborGraphFilter
)
CompoundInterpolatorCAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
create_res_filter()
(in
ResidueHasPropertyCreator
)
clear()
(in
PoseComment
)
CompoundPackableTask()
(in
StoreCompoundTaskMover
)
create_res_filter()
(in
ResidueIndexIsCreator
)
clear()
(in
PoseInfoFilter
)
compounds()
(in
HeaderInformation
)
create_res_filter()
(in
ResidueIndexIsntCreator
)
clear()
(in
RGFilter
)
CompoundToken
(in
HeaderInformation
)
create_res_filter()
(in
ResidueLacksPropertyCreator
)
clear()
(in
RangeFilter
)
CompoundToken_max
(in
CompoundToken
)
create_res_filter()
(in
ResidueName3IsCreator
)
clear()
(in
RelativePoseFilter
)
CompoundToken_max
(in
HeaderInformation
)
create_res_filter()
(in
ResidueName3IsntCreator
)
clear()
(in
RepeatParameterFilter
)
CompoundTranslate
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_res_filter()
(in
ResiduePDBIndexIsCreator
)
clear()
(in
ReportFilter
)
CompoundTranslateAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_res_filter()
(in
ResiduePDBIndexIsntCreator
)
clear()
(in
ResidueBurialFilter
)
CompoundTranslateCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_res_filter()
(in
ResiduePDBInfoHasLabelCreator
)
clear()
(in
ResidueCountFilter
)
CompoundTranslateCreator
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_res_filter()
(in
ResiduePDBInfoLacksLabelCreator
)
clear()
(in
ResidueDistanceFilter
)
CompoundTranslateCreatorAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_res_filter()
(in
ResidueTypeFilterCreator
)
clear()
(in
ResidueIEFilter
)
CompoundTranslateCreatorCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
create_res_filter()
(in
ProteinCoreFilterCreator
)
clear()
(in
ResidueSetChainEnergyFilter
)
compprob()
(in
PackingScore
)
create_res_level_task_operation()
(in
AddBehaviorRLTCreator
)
clear()
(in
ResiduesInInterfaceFilter
)
compute()
(in
TorsionFourierComponent
)
create_res_level_task_operation()
(in
DisallowIfNonnativeRLTCreator
)
clear()
(in
RotamerBoltzmannWeight
)
compute()
(in
Slice
)
create_res_level_task_operation()
(in
PreventRepackingRLTCreator
)
clear()
(in
SAXSScoreFilter
)
compute()
(in
Calculator
)
create_res_level_task_operation()
(in
ResLvlTaskOperationCreator
)
clear()
(in
SSMotifFinder
)
compute()
(in
ExposedHydrophobicsFilter
)
create_res_level_task_operation()
(in
RestrictAbsentCanonicalAASRLTCreator
)
clear()
(in
SavePoseConstraintToFileFilter
)
compute()
(in
CalculatorFilter
)
create_res_level_task_operation()
(in
RestrictToRepackingRLTCreator
)
clear()
(in
SaveResfileToDiskFilter
)
compute()
(in
CombinedFilter
)
create_residue()
(in
Residue
)
clear()
(in
ScoreCutoffFilter
)
compute()
(in
CompoundFilter
)
create_residue()
(in
ResidueFactory
)
clear()
(in
ScoreTypeFilter
)
compute()
(in
IfThenFilter
)
create_residue_selector()
(in
AndResidueSelectorCreator
)
clear()
(in
ShapeComplementarityFilter
)
compute()
(in
ReplicateFilter
)
create_residue_selector()
(in
ChainSelectorCreator
)
clear()
(in
SheetFilter
)
compute()
(in
TimeFilter
)
create_residue_selector()
(in
ClashBasedRepackShellSelectorCreator
)
clear()
(in
SidechainRmsdFilter
)
compute()
(in
MatchResidues
)
create_residue_selector()
(in
InterGroupInterfaceByVectorSelectorCreator
)
clear()
(in
Sigmoid
)
compute()
(in
CoreDunbrackFilter
)
create_residue_selector()
(in
JumpDownstreamSelectorCreator
)
clear()
(in
StemFinder
)
compute()
(in
FragQualFilter
)
create_residue_selector()
(in
JumpUpstreamSelectorCreator
)
clear()
(in
SymmetricMotifFilter
)
compute()
(in
HSSTripletFilter
)
create_residue_selector()
(in
NeighborhoodResidueSelectorCreator
)
clear()
(in
TaskAwareSASAFilter
)
compute()
(in
HelixPairingFilter
)
create_residue_selector()
(in
NotResidueSelectorCreator
)
clear()
(in
TaskAwareScoreTypeFilter
)
compute()
(in
InterlockingAromaFilter
)
create_residue_selector()
(in
NumNeighborsSelectorCreator
)
clear()
(in
TerminusDistanceFilter
)
compute()
(in
NcontactsFilter
)
create_residue_selector()
(in
OrResidueSelectorCreator
)
clear()
(in
TotalSasaFilter
)
compute()
(in
ParallelBetaPairingPreferenceFilter
)
create_residue_selector()
(in
ResidueIndexSelectorCreator
)
clear()
(in
BackboneMover
)
compute()
(in
SecondaryStructureCountFilter
)
create_residue_selector()
(in
ResidueNameSelectorCreator
)
clear()
(in
LoggedFragmentMover
)
compute()
(in
SecondaryStructureFilter
)
create_residue_selector()
(in
ResidueSelectorCreator
)
clear()
(in
DecoySetEvaluation
)
compute()
(in
SecondaryStructureHasResidueFilter
)
create_residue_selector()
(in
SecondaryStructureSelectorCreator
)
clear()
(in
KClusterElement
)
compute()
(in
FragmentLookupFilter
)
create_residue_selector()
(in
TrueResidueSelectorCreator
)
clear()
(in
EnzdesLoopsFile
)
compute()
(in
ClashCheckFilter
)
create_resource()
(in
DatabaseSessionLoader
)
clear()
(in
SilentStructStore
)
compute()
(in
GetRBDOFValues
)
create_resource()
(in
LazyResourceManager
)
clear()
(in
WorkUnitQueue
)
compute()
(in
InterfacePackingFilter
)
create_resource()
(in
ResourceLoader
)
clear()
(in
WorkUnitQueue_Swapped
)
compute()
(in
OligomericAverageDegreeFilter
)
create_resource()
(in
ResidueLoader
)
clear()
(in
WUQueue
)
compute()
(in
SymUnsatHbondFilter
)
create_resource()
(in
SymmDataLoader
)
clear()
(in
recent_history_queue
)
compute()
(in
AtomicContactCountFilter
)
create_resource()
(in
PoseFromPDBLoader
)
clear()
(in
FileName
)
compute()
(in
AverageDegreeFilter
)
create_resource()
(in
SilentFileLoader
)
clear()
(in
PathName
)
compute()
(in
BindingStrainFilter
)
create_resource()
(in
ElectronDensityLoader
)
clear()
(in
Tag
)
compute()
(in
BoltzmannFilter
)
create_resource()
(in
FiberDiffractionLoader
)
clear_()
(in
SOGFunc_Impl
)
compute()
(in
ClashWithTargetFilter
)
create_resource()
(in
LoopHashLibraryLoader
)
clear_active_pose_constraints()
(in
EnzdesCstParamCache
)
compute()
(in
DesignableResiduesFilter
)
create_resource()
(in
LoopsFileLoader
)
clear_active_pose_constraints_for_block()
(in
EnzConstraintIO
)
compute()
(in
FNatFilter
)
create_resource()
(in
LipoFileLoader
)
clear_all()
(in
EnzCstTemplateRes
)
compute()
(in
HbondsToAtomFilter
)
create_resource()
(in
SpanFileLoader
)
clear_atoms()
(in
DOF_Node
)
compute()
(in
HbondsToResidueFilter
)
create_resource()
(in
SurfaceVectorLoader
)
clear_blacklist()
(in
WorkUnitBase
)
compute()
(in
IRmsdFilter
)
create_resource_by_job_tag()
(in
LazyResourceManager
)
clear_cached_data()
(in
GreedyOptMutationMover
)
compute()
(in
InterfaceHolesFilter
)
create_resource_loader()
(in
DatabaseSessionLoaderCreator
)
clear_cached_data()
(in
MatDesGreedyOptMutationMover
)
compute()
(in
LRmsdFilter
)
create_resource_loader()
(in
ResourceLoaderCreator
)
clear_calculators()
(in
CalculatorFactory
)
compute()
(in
RmsdFilter
)
create_resource_loader()
(in
ResourceLoaderFactory
)
clear_checkpoints()
(in
MembraneAbinitio
)
compute()
(in
RmsdSimpleFilter
)
create_resource_loader()
(in
ResidueLoaderCreator
)
clear_checkpoints()
(in
CheckPointer
)
compute()
(in
SSamountFilter
)
create_resource_loader()
(in
SymmDataLoaderCreator
)
clear_combine_history()
(in
CombinePoseMover
)
compute()
(in
SequenceRecoveryFilter
)
create_resource_loader()
(in
PoseFromPDBLoaderCreator
)
clear_comments()
(in
SilentStruct
)
compute()
(in
SpecificResiduesNearInterfaceFilter
)
create_resource_loader()
(in
SilentFileLoaderCreator
)
clear_compounds()
(in
HeaderInformation
)
compute()
(in
StubScoreFilter
)
create_resource_loader()
(in
ElectronDensityLoaderCreator
)
clear_data()
(in
SS_Info2
)
compute()
(in
Torsion
)
create_resource_loader()
(in
FiberDiffractionLoaderCreator
)
clear_data()
(in
BuildPosition
)
compute()
(in
AngleToVector
)
create_resource_loader()
(in
LoopHashLibraryLoaderCreator
)
clear_data()
(in
KClusterElement
)
compute()
(in
AtomicContactFilter
)
create_resource_loader()
(in
LoopsFileLoaderCreator
)
clear_dCCdx_res_cache()
(in
ElectronDensity
)
compute()
(in
AtomicDistanceFilter
)
create_resource_loader()
(in
LipoFileLoaderCreator
)
clear_dependencies()
(in
BuildInstruction
)
compute()
(in
AveragePathLengthFilter
)
create_resource_loader()
(in
SpanFileLoaderCreator
)
clear_dependencies()
(in
BuildManager
)
compute()
(in
BuriedUnsatHbondFilter
)
create_resource_loader()
(in
SurfaceVectorLoaderCreator
)
clear_design_taskset()
(in
FlxbbDesign
)
compute()
(in
DdgFilter
)
create_resource_locator()
(in
ResourceLocatorCreator
)
clear_downstream_orientation_atoms()
(in
MatcherTask
)
compute()
(in
DeltaFilter
)
create_resource_locator()
(in
ResourceLocatorFactory
)
clear_edges()
(in
ResidueNetwork
)
compute()
(in
DisulfideEntropyFilter
)
create_resource_locator()
(in
DatabaseResourceLocatorCreator
)
clear_energies()
(in
PDBSilentStruct
)
compute()
(in
EnergyPerResidueFilter
)
create_resource_locator()
(in
FileListResourceLocatorCreator
)
clear_energies()
(in
BinarySilentStruct
)
compute()
(in
ExpiryFilter
)
create_resource_locator()
(in
FileSystemResourceLocatorCreator
)
clear_energies()
(in
RNA_SilentStruct
)
compute()
(in
FileExistFilter
)
create_resource_locator()
(in
NullResourceLocatorCreator
)
clear_energies()
(in
RigidBodySilentStruct
)
compute()
(in
FileRemoveFilter
)
create_resource_manager()
(in
JD2ResourceManagerCreator
)
clear_energies()
(in
ScoreFileSilentStruct
)
compute()
(in
GeometryFilter
)
create_resource_manager_from_options_system()
(in
ResourceManagerFactory
)
clear_energies()
(in
ScoreJumpFileSilentStruct
)
compute()
(in
HolesFilter
)
create_resource_options()
(in
ResourceOptionsFactory
)
clear_energies()
(in
SilentStruct
)
compute()
(in
InterRepeatContactFilter
)
create_resources()
(in
LazyResourceManager
)
clear_energies()
(in
Energies
)
compute()
(in
InterfaceBindingEnergyDensityFilter
)
create_rna_vall_torsions()
(in
rosetta.protocols.farna._protocols_farna_
)
clear_evaluators()
(in
JobOutputter
)
compute()
(in
InterfaceSasaFilter
)
create_rotamer()
(in
Residue
)
clear_events()
(in
LengthEventCollector
)
compute()
(in
IntraRepeatContactFilter
)
create_rotamer_set()
(in
RotamerSetFactory
)
clear_experimental_techniques()
(in
HeaderInformation
)
compute()
(in
LeastNativeLike9merFilter
)
create_rotamer_set()
(in
SymmetricRotamerSetFactory
)
clear_extent_eval()
(in
Librarian_T_core_fragment_picking_old_vall_scores_VallFragmentScore_core_fragment_picking_old_vall_eval_VallFragmentEval_core_fragment_picking_old_vall_gen_VallFragmentGen_core_fragment_picking_old_vall_VallLibrary_T
)
compute()
(in
MotifScoreFilter
)
create_rotamer_set()
(in
MapHotspot
)
clear_extent_gen()
(in
Librarian_T_core_fragment_picking_old_vall_scores_VallFragmentScore_core_fragment_picking_old_vall_eval_VallFragmentEval_core_fragment_picking_old_vall_gen_VallFragmentGen_core_fragment_picking_old_vall_VallLibrary_T
)
compute()
(in
MultipleSigmoids
)
create_rotamer_string()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clear_external_geom_samplers()
(in
ClassicMatchAlgorithm
)
compute()
(in
MutationsFilter
)
create_rotamer_subsets_from_rot_to_pack()
(in
RotamerSubsetRepacker
)
clear_filters()
(in
KinematicMover
)
compute()
(in
NMerPSSMEnergyFilter
)
create_rotamer_trie()
(in
MMLJEnergyInter
)
clear_filters()
(in
MatchProcessor
)
compute()
(in
NMerSVMEnergyFilter
)
create_sample_vector()
(in
GeomSampleInfo
)
clear_fragment_eval()
(in
VallLibrarian
)
compute()
(in
NeighborTypeFilter
)
create_sasa_method()
(in
rosetta.core.scoring.sasa._core_scoring_sasa_
)
clear_fragment_gen()
(in
VallLibrarian
)
compute()
(in
NetChargeFilter
)
create_score_function()
(in
ScoreFunctionFactory
)
clear_fragments()
(in
VarLengthBuild
)
compute()
(in
NonSequentialNeighborsFilter
)
create_score_function()
(in
rosetta.core.scoring._core_scoring_
)
clear_fragments()
(in
LoopMover
)
compute()
(in
Operator
)
create_score_function_ws_patch()
(in
rosetta.core.scoring._core_scoring_
)
clear_hash_map()
(in
HitHasher
)
compute()
(in
PackStatFilter
)
create_scores()
(in
FragmentScoreManager
)
clear_history()
(in
MultistateFitnessFunction
)
compute()
(in
PoseComment
)
create_scoring_method()
(in
FragmentScoreManager
)
clear_info()
(in
RotamerDumpMover
)
compute()
(in
PoseInfoFilter
)
create_SecMatchResiduePairEvaluatorOP()
(in
SecMatchEvaluatorFactory
)
clear_info()
(in
AbrelaxMover
)
compute()
(in
RelativePoseFilter
)
create_selector()
(in
PoseSelectorCreator
)
clear_info()
(in
ClassicAbinitio
)
compute()
(in
ReportFilter
)
create_sequence()
(in
ChemicalShiftSequenceCreator
)
clear_info()
(in
ConstraintFragmentSampler
)
compute()
(in
ResidueBurialFilter
)
create_sequence()
(in
CompositeSequenceCreator
)
clear_info()
(in
DomainAssembly
)
compute()
(in
ResidueCountFilter
)
create_sequence()
(in
SequenceCouplingCreator
)
clear_info()
(in
DoubleLayerKinematicAbinitio
)
compute()
(in
ResidueDistanceFilter
)
create_sequence()
(in
SequenceCreator
)
clear_info()
(in
FoldConstraints
)
compute()
(in
ResidueIEFilter
)
create_sequence()
(in
SequenceProfileCreator
)
clear_info()
(in
FragmentSampler
)
compute()
(in
ResidueSetChainEnergyFilter
)
create_sequence()
(in
SimpleSequenceCreator
)
clear_info()
(in
JumpingFoldConstraintsWrapper
)
compute()
(in
ResiduesInInterfaceFilter
)
create_sequence_profile_constraints()
(in
ConsensusDesignMover
)
clear_info()
(in
KinematicAbinitio
)
compute()
(in
RotamerBoltzmannWeight
)
create_shuffle_map_recursive_rms()
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
KinematicTaskControl
)
compute()
(in
SavePoseConstraintToFileFilter
)
create_silent_struct()
(in
PDBSilentStructCreator
)
clear_info()
(in
LoopJumpFoldCst
)
compute()
(in
ScoreTypeFilter
)
create_silent_struct()
(in
BinarySilentStructCreator
)
clear_info()
(in
MembraneAbinitio
)
compute()
(in
ShapeComplementarityFilter
)
create_silent_struct()
(in
ProteinSilentStructCreator
)
clear_info()
(in
Protocol
)
compute()
(in
SidechainRmsdFilter
)
create_silent_struct()
(in
ProteinSilentStruct_SinglePrecCreator
)
clear_info()
(in
ResolutionSwitcher
)
compute()
(in
Sigmoid
)
create_silent_struct()
(in
RNA_SilentStructCreator
)
clear_info()
(in
AbscriptLoopCloserCM
)
compute()
(in
SymmetricMotifFilter
)
create_silent_struct()
(in
RigidBodySilentStructCreator
)
clear_info()
(in
AbscriptMover
)
compute()
(in
TaskAwareSASAFilter
)
create_silent_struct()
(in
ScoreFileSilentStructCreator
)
clear_info()
(in
AbscriptStageMover
)
compute()
(in
TaskAwareScoreTypeFilter
)
create_silent_struct()
(in
ScoreJumpFileSilentStructCreator
)
clear_info()
(in
ConstraintPreparer
)
compute()
(in
TerminusDistanceFilter
)
create_silent_struct()
(in
SilentStructCreator
)
clear_info()
(in
FragmentCM
)
compute()
(in
TotalSasaFilter
)
create_SilentStructOP()
(in
SilentFileData
)
clear_info()
(in
FragmentJumpCM
)
compute()
(in
ClusterPhilStyle
)
create_sliced_pose()
(in
SlicedPoseWorkingParameters
)
clear_info()
(in
RigidChunkCM
)
compute()
(in
SelectResiduesByLayer
)
create_standard_o2prime_pack_task()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clear_info()
(in
StagePreparer
)
compute_acceptor_atom_energy()
(in
ExactOccludedHbondSolEnergy
)
create_strand_list()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clear_info()
(in
StructPerturberCM
)
compute_altbbconf_alternate_state_energy()
(in
OTFFlexbbEdge
)
create_sub_to_full_map()
(in
StepWiseBasicWorkingParameters
)
clear_info()
(in
InterfaceAnalyzerMover
)
compute_atom_packing_scores()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
create_subpose()
(in
rosetta.core.pose._core_pose_
)
clear_info()
(in
LoopAnalyzerMover
)
compute_average_structure()
(in
DecoySetEvaluation
)
create_subpose()
(in
CutChainMover
)
clear_info()
(in
PackStatMover
)
compute_avge_scores()
(in
rosetta.protocols.sasa_scores._protocols_sasa_scores_
)
create_tag()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clear_info()
(in
AnchoredDesignMover
)
compute_bb_centroid()
(in
rosetta.core.scoring._core_scoring_
)
create_task_and_apply_taskoperations()
(in
TaskFactory
)
clear_info()
(in
AnchoredPerturbMover
)
compute_bb_radius()
(in
rosetta.core.scoring._core_scoring_
)
create_task_for_allhotspot_packing()
(in
PlaceSimultaneouslyMover
)
clear_info()
(in
AnchoredRefineMover
)
compute_Boltzmann_weight()
(in
RotamerBoltzmannWeight
)
create_task_for_hotspot_packing()
(in
PlaceSimultaneouslyMover
)
clear_info()
(in
AntibodyModelerProtocol
)
compute_cav_ball_clusters()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
create_task_operation()
(in
AppendResidueRotamerSetCreator
)
clear_info()
(in
CDRsMinPackMin
)
compute_cav_ball_neighbor_count()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
create_task_operation()
(in
AppendRotamerCreator
)
clear_info()
(in
CloseOneCDRLoop
)
compute_cav_ball_volumes()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
create_task_operation()
(in
AppendRotamerSetCreator
)
clear_info()
(in
GraftCDRLoopsProtocol
)
compute_centroid_environment()
(in
CenRotEnvPairPotential
)
create_task_operation()
(in
DisallowIfNonnativeCreator
)
clear_info()
(in
GraftOneCDRLoop
)
compute_centroid_environment()
(in
EnvPairPotential
)
create_task_operation()
(in
ExtraChiCutoffCreator
)
clear_info()
(in
GraftedStemOptimizer
)
compute_centroid_environment()
(in
SmoothEnvPairPotential
)
create_task_operation()
(in
ExtraRotamersCreator
)
clear_info()
(in
H3CterInsert
)
compute_chi()
(in
PDDFEnergy
)
create_task_operation()
(in
ExtraRotamersGenericCreator
)
clear_info()
(in
H3PerturbCCD
)
compute_comb()
(in
MatchResidues
)
create_task_operation()
(in
IncludeCurrentCreator
)
clear_info()
(in
H3RefineCCD
)
compute_csascore()
(in
ChemicalShiftAnisotropy
)
create_task_operation()
(in
InitializeExtraRotsFromCommandlineCreator
)
clear_info()
(in
LHRepulsiveRamp
)
compute_d2()
(in
SymmetricMotifFilter
)
create_task_operation()
(in
InitializeFromCommandlineCreator
)
clear_info()
(in
ModelCDRH3
)
compute_dcentroid_environment()
(in
CenRotEnvPairPotential
)
create_task_operation()
(in
NoRepackDisulfidesCreator
)
clear_info()
(in
RefineBetaBarrel
)
compute_dcentroid_environment()
(in
SmoothEnvPairPotential
)
create_task_operation()
(in
OperateOnCertainResiduesCreator
)
clear_info()
(in
RefineOneCDRLoop
)
compute_dcscore()
(in
DipolarCoupling
)
create_task_operation()
(in
OperateOnResidueSubsetCreator
)
clear_info()
(in
RefineOneCDRLoopCentroid
)
compute_dec15_score()
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
create_task_operation()
(in
OptCysHGCreator
)
clear_info()
(in
CDRDihedralConstraintMover
)
compute_dipscore()
(in
ResidualDipolarCoupling
)
create_task_operation()
(in
OptHCreator
)
clear_info()
(in
ParatopeEpitopeSiteConstraintMover
)
compute_dipscore_nls()
(in
ResidualDipolarCoupling
)
create_task_operation()
(in
PreserveCBetaCreator
)
clear_info()
(in
ParatopeSiteConstraintMover
)
compute_dipscore_nlsDa()
(in
ResidualDipolarCoupling
)
create_task_operation()
(in
PreventRepackingCreator
)
clear_info()
(in
AntibodyDesignMover
)
compute_dipscore_nlsDaR()
(in
ResidualDipolarCoupling
)
create_task_operation()
(in
ReadResfileAndObeyLengthEventsCreator
)
clear_info()
(in
AntibodyDesignProtocol
)
compute_dipscore_nlsR()
(in
ResidualDipolarCoupling
)
create_task_operation()
(in
ReadResfileCreator
)
clear_info()
(in
MutateFrameworkForCluster
)
compute_distance_matrix()
(in
DecoySetEvaluation
)
create_task_operation()
(in
ReplicateTaskCreator
)
clear_info()
(in
AntibodyModeler
)
compute_donor_atom_energy()
(in
ExactOccludedHbondSolEnergy
)
create_task_operation()
(in
RestrictAbsentCanonicalAASCreator
)
clear_info()
(in
CDRH3Modeler
)
compute_energies()
(in
RotamerSets
)
create_task_operation()
(in
RestrictResidueToRepackingCreator
)
clear_info()
(in
CloseOneMover
)
compute_energies()
(in
SymmetricRotamerSets
)
create_task_operation()
(in
RestrictToRepackingCreator
)
clear_info()
(in
GraftMover
)
compute_energies()
(in
StructureScoresFeatures
)
create_task_operation()
(in
RestrictYSDesignCreator
)
clear_info()
(in
GraftOneMover
)
compute_energy()
(in
SimpleEdge
)
create_task_operation()
(in
RotamerExplosionCreator
)
clear_info()
(in
LoopRlxMover
)
compute_energy_for_assignment()
(in
DaemonSet
)
create_task_operation()
(in
SetRotamerCouplingsCreator
)
clear_info()
(in
BackrubMover
)
compute_energy_for_assignment()
(in
PackDaemon
)
create_task_operation()
(in
SetRotamerLinksCreator
)
clear_info()
(in
BackrubProtocol
)
compute_entropy_reduction()
(in
RotamerBoltzmannWeight
)
create_task_operation()
(in
TaskOperationCreator
)
clear_info()
(in
BackrubSidechainMover
)
compute_exact_geosol()
(in
rosetta.core.scoring.geometric_solvation._core_scoring_geometric_solvation_
)
create_task_operation()
(in
RestrictDesignToProteinDNAInterfaceCreator
)
clear_info()
(in
CanonicalSamplingMover
)
compute_fa_projection()
(in
Membrane_FAPotential
)
create_task_operation()
(in
WatsonCrickRotamerCouplingsCreator
)
clear_info()
(in
FixedTemperatureController
)
compute_frag_bias()
(in
FragmentBiasAssigner
)
create_task_operation()
(in
LayerDesignOperationCreator
)
clear_info()
(in
MetricRecorder
)
compute_func()
(in
SoedingFunc
)
create_task_operation()
(in
BuildingBlockInterfaceOperationCreator
)
clear_info()
(in
MetropolisHastingsMover
)
compute_grid_constant()
(in
ExactOccludedHbondSolEnergy
)
create_task_operation()
(in
AlignedThreadOperationCreator
)
clear_info()
(in
ParallelTempering
)
compute_gunn()
(in
GunnCost
)
create_task_operation()
(in
CrystalContactsOperationCreator
)
clear_info()
(in
ProgressBarObserver
)
compute_gunn()
(in
GunnCost
)
create_task_operation()
(in
DatabaseThreadCreator
)
clear_info()
(in
SidechainMetropolisHastingsMover
)
compute_holes_deriv()
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
create_task_operation()
(in
DesignAroundOperationCreator
)
clear_info()
(in
SimulatedTempering
)
compute_holes_deriv_res()
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
create_task_operation()
(in
DsspDesignOperationCreator
)
clear_info()
(in
TemperatureController
)
compute_holes_score()
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
create_task_operation()
(in
ImportUnboundRotamersOperationCreator
)
clear_info()
(in
TemperingBase
)
compute_holes_score_res()
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
create_task_operation()
(in
InteractingRotamerExplosionCreator
)
clear_info()
(in
ThermodynamicMover
)
compute_interface()
(in
InterchainPotential
)
create_task_operation()
(in
JointSequenceOperationCreator
)
clear_info()
(in
ThermodynamicObserver
)
compute_jump()
(in
SSMotifFinder
)
create_task_operation()
(in
LimitAromaChi2OperationCreator
)
clear_info()
(in
TrialCounterObserver
)
compute_jump_rmsd()
(in
rosetta.core.scoring._core_scoring_
)
create_task_operation()
(in
LinkResiduesCreator
)
clear_info()
(in
AssignToClustersMover
)
compute_L1()
(in
PDDFEnergy
)
create_task_operation()
(in
ModifyAnnealerCreator
)
clear_info()
(in
ClusterBase
)
compute_lb_function_solution()
(in
Interpolator
)
create_task_operation()
(in
PreventChainFromRepackingOperationCreator
)
clear_info()
(in
ClusterPhilStyle
)
compute_ligand_natoms()
(in
PlaidFingerprint
)
create_task_operation()
(in
PreventResiduesFromRepackingOperationCreator
)
clear_info()
(in
ClusterPhilStyle_Loop
)
compute_ligand_natoms_with_hydrogens()
(in
PlaidFingerprint
)
create_task_operation()
(in
ProteinInterfaceDesignOperationCreator
)
clear_info()
(in
ClusterPhilStyle_PoseReporter
)
compute_ligand_nconformers()
(in
PlaidFingerprint
)
create_task_operation()
(in
ReadResfileFromDBCreator
)
clear_info()
(in
EnsembleConstraints
)
compute_ligand_resnum()
(in
PlaidFingerprint
)
create_task_operation()
(in
RestrictByCalculatorsOperationCreator
)
clear_info()
(in
EnsembleConstraints_Simple
)
compute_matching_energy()
(in
DisulfideMatchingPotential
)
create_task_operation()
(in
RestrictChainToRepackingOperationCreator
)
clear_info()
(in
GatherPosesMover
)
compute_membrane_embedding()
(in
MembranePotential
)
create_task_operation()
(in
RestrictConservedLowDdgOperationCreator
)
clear_info()
(in
CoarseRNA_LoopCloser
)
compute_metrics()
(in
MotifHits
)
create_task_operation()
(in
RestrictIdentitiesAtAlignedPositionsOperationCreator
)
clear_info()
(in
ExtraThreadingMover
)
compute_model_weights()
(in
PairingStatistics
)
create_task_operation()
(in
RestrictIdentitiesOperationCreator
)
clear_info()
(in
LoopRelaxMover
)
compute_modified_ddG()
(in
RotamerBoltzmannWeight
)
create_task_operation()
(in
RestrictInterGroupVectorOperationCreator
)
clear_info()
(in
LoopRelaxThreadingMover
)
compute_mpair_score()
(in
MPPairEnergy
)
create_task_operation()
(in
RestrictNativeResiduesOperationCreator
)
clear_info()
(in
MultiThreadingMover
)
compute_mpcbeta_score()
(in
MPCbetaEnergy
)
create_task_operation()
(in
RestrictNonSurfaceToRepackingOperationCreator
)
clear_info()
(in
PartialThreadingMover
)
compute_mpenv_score()
(in
MPEnvEnergy
)
create_task_operation()
(in
RestrictResiduesToRepackingOperationCreator
)
clear_info()
(in
RecoverSideChainsMover
)
compute_nonhelix_penalty()
(in
MPNonHelixPenalty
)
create_task_operation()
(in
RestrictToAlignedSegmentsOperationCreator
)
clear_info()
(in
StealLigandMover
)
compute_normalization()
(in
ElectronDensityAtomwise
)
create_task_operation()
(in
RestrictToCDRH3LoopCreator
)
clear_info()
(in
StealSideChainsMover
)
compute_number_cavities()
(in
VIP_Mover
)
create_task_operation()
(in
RestrictToInterfaceCreator
)
clear_info()
(in
ThreadingMover
)
compute_one_and_two_body_energies()
(in
RotamerSet
)
create_task_operation()
(in
RestrictToInterfaceOperationCreator
)
clear_info()
(in
ContactMap
)
compute_one_and_two_body_energies()
(in
RotamerSet_
)
create_task_operation()
(in
RestrictToInterfaceVectorOperationCreator
)
clear_info()
(in
FitBfactorsMover
)
compute_one_and_two_body_energies()
(in
RotamerSubset
)
create_task_operation()
(in
RestrictToLoopsAndNeighborsCreator
)
clear_info()
(in
LoadDensityMapMover
)
compute_one_and_two_body_energies()
(in
SymmetricRotamerSet_
)
create_task_operation()
(in
RestrictToLoopsCreator
)
clear_info()
(in
RecomputeDensityMapMover
)
compute_one_and_two_body_energies()
(in
FlexbbRotamerSet
)
create_task_operation()
(in
RestrictToNeighborhoodOperationCreator
)
clear_info()
(in
SetCrystWeightMover
)
compute_one_body_energies()
(in
RotamerSet
)
create_task_operation()
(in
RestrictToTerminiOperationCreator
)
clear_info()
(in
SetRefinementOptionsMover
)
compute_one_body_energies()
(in
RotamerSet_
)
create_task_operation()
(in
RetrieveStoredTaskOperationCreator
)
clear_info()
(in
TagPoseWithRefinementStatsMover
)
compute_one_body_energies()
(in
RotamerSets
)
create_task_operation()
(in
SelectByDeltaScoreOperationCreator
)
clear_info()
(in
UpdateSolventMover
)
compute_one_body_energies()
(in
RotamerSubset
)
create_task_operation()
(in
SelectByDensityFitOperationCreator
)
clear_info()
(in
CreateAngleConstraint
)
compute_one_body_energies()
(in
SymmetricRotamerSet_
)
create_task_operation()
(in
SelectBySASAOperationCreator
)
clear_info()
(in
CreateDistanceConstraint
)
compute_one_body_energies()
(in
SymmetricRotamerSets
)
create_task_operation()
(in
SelectResiduesWithinChainOperationCreator
)
clear_info()
(in
CreateTorsionConstraint
)
compute_one_body_energies()
(in
FlexbbRotamerSet
)
create_task_operation()
(in
SeqprofConsensusOperationCreator
)
clear_info()
(in
DeclareBond
)
compute_one_body_energies_for_otf_ig()
(in
FlexbbRotamerSets
)
create_task_operation()
(in
SetIGTypeOperationCreator
)
clear_info()
(in
PeptideStubMover
)
compute_one_body_energy_maps()
(in
RotamerSet
)
create_task_operation()
(in
ThreadSequenceOperationCreator
)
clear_info()
(in
ddGMover
)
compute_one_body_energy_maps()
(in
RotamerSet_
)
create_torsion_value_string()
(in
rosetta.protocols.stepwise.modeler.rna._protocols_stepwise_modeler_rna_
)
clear_info()
(in
GreedyOptMutationMover
)
compute_one_body_energy_maps()
(in
RotamerSubset
)
create_VDW_screen_bin()
(in
RNA_VDW_BinChecker
)
clear_info()
(in
ParetoOptMutationMover
)
compute_one_body_energy_maps()
(in
SymmetricRotamerSet_
)
create_vrt_if_necessary()
(in
JumpClaim
)
clear_info()
(in
DesignProteinBackboneAroundDNA
)
compute_one_body_energy_maps()
(in
FlexbbRotamerSet
)
create_working_data()
(in
FileData
)
clear_info()
(in
DnaInterfaceMinMover
)
compute_packing_score()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
create_xyz_constraints_median()
(in
DecoySetEvaluation
)
clear_info()
(in
DnaInterfaceMultiStateDesign
)
compute_packing_score_leerichards()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
CreateAngleConstraint
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DnaInterfacePacker
)
compute_pair_energy_for_alternate_state()
(in
LinearMemNode
)
CreateAngleConstraintAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
SeparateDnaFromNonDna
)
compute_pair_energy_for_alternate_state()
(in
SymmLinearMemNode
)
CreateAngleConstraintCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
ConformerSwitchMover
)
compute_pair_energy_for_alternate_state()
(in
SymmMinimalistNode
)
CreateAngleConstraintCreator
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockMCMCycle
)
compute_pair_energy_for_current_state()
(in
DoubleLazyNode
)
CreateAngleConstraintCreatorAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockMCMProtocol
)
compute_pair_energy_for_current_state()
(in
LazyNode
)
CreateAngleConstraintCreatorCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockMinMover
)
compute_pair_energy_for_current_state()
(in
LinearMemNode
)
createConstraints()
(in
EnsembleConstraints
)
clear_info()
(in
DockSetupMover
)
compute_pair_energy_for_current_state()
(in
SymmLinearMemNode
)
createConstraints()
(in
EnsembleConstraints_Simple
)
clear_info()
(in
DockingEnsemblePrepackProtocol
)
compute_pair_energy_for_current_state()
(in
SymmMinimalistNode
)
CreateDistanceConstraint
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockingHighRes
)
compute_pairwise_score()
(in
ResidualDipolarCouplingRigidSegments
)
CreateDistanceConstraintAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockingHighResLegacy
)
compute_pddf()
(in
PDDFEnergy
)
CreateDistanceConstraintCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockingInitialPerturbation
)
compute_pddf_without_ff()
(in
PDDFEnergy
)
CreateDistanceConstraintCreator
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockingLowRes
)
compute_per_residue_coverage()
(in
rosetta.core.fragment._core_fragment_
)
CreateDistanceConstraintCreatorAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockingLowResEnsemble
)
compute_polar_group_sol_energy()
(in
ExactOccludedHbondSolEnergy
)
CreateDistanceConstraintCreatorCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DockingPrepackProtocol
)
compute_pose_hpatch_score()
(in
SurfacePotential
)
createFileData()
(in
PDB_DReader
)
clear_info()
(in
DockingProtocol
)
compute_pose_surface_energy()
(in
SurfacePotential
)
createPDBData()
(in
PDB_DReader
)
clear_info()
(in
DockingSlideIntoContact
)
compute_proline_correction_energies_for_otf_graph()
(in
SymmetricRotamerSets
)
createPDBData_vector()
(in
PDB_DReader
)
clear_info()
(in
EllipsoidalRandomizationMover
)
compute_proposal_density()
(in
JumpRotamerSidechainMover
)
createPDBString()
(in
PDB_DReader
)
clear_info()
(in
FaDockingSlideIntoContact
)
compute_proposal_density()
(in
PerturbChiSidechainMover
)
createRecords()
(in
PDB_DReader
)
clear_info()
(in
InterfaceSidechainMinMover
)
compute_proposal_density()
(in
PerturbRotamerSidechainMover
)
creates_undefined_backbone()
(in
Bridge
)
clear_info()
(in
SidechainMinMover
)
compute_proposal_density()
(in
SidechainMoverBase
)
creates_undefined_backbone()
(in
BuildInstruction
)
clear_info()
(in
TemperedDocking
)
compute_rama_score()
(in
RamaCheck1B
)
creates_undefined_backbone()
(in
ConnectRight
)
clear_info()
(in
MPDockingMover
)
compute_rama_score()
(in
RamaCheck2B
)
creates_undefined_backbone()
(in
GrowLeft
)
clear_info()
(in
MPDockingSetupMover
)
compute_rama_score()
(in
RamaCheckBase
)
creates_undefined_backbone()
(in
GrowRight
)
clear_info()
(in
SaneDockingProtocol
)
compute_residual()
(in
DisulfideEntropyFilter
)
creates_undefined_backbone()
(in
SegmentRebuild
)
clear_info()
(in
AddAssemblyConstraints
)
compute_residue()
(in
NMerPSSMEnergyFilter
)
creates_undefined_backbone()
(in
SegmentSwap
)
clear_info()
(in
AssembleLinkerMover
)
compute_residue_packing_score()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
CreateTorsionConstraint
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
CombineChainsMover
)
compute_residue_packing_scores()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
CreateTorsionConstraintAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
PostDockAssemblyScorer
)
compute_residue_sasas_for_sasa_scores()
(in
rosetta.protocols.sasa_scores._protocols_sasa_scores_
)
CreateTorsionConstraintCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
BfactorFittingMover
)
compute_residue_surface_energy()
(in
SurfacePotential
)
CreateTorsionConstraintCreator
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
DensityMorphingMover
)
compute_rho()
(in
ElectronDensity
)
CreateTorsionConstraintCreatorAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
ReportFSC
)
compute_rmsd()
(in
LoopRelaxMover
)
CreateTorsionConstraintCreatorCAP
(in
rosetta.protocols.cyclic_peptide._protocols_cyclic_peptide_
)
clear_info()
(in
ScaleMapIntensities
)
compute_rosettaholes_score()
(in
rosetta.core.scoring.packing._core_scoring_packing_
)
crick_equations
(in
rosetta.numeric
)
clear_info()
(in
SetupForDensityScoringMover
)
compute_rotamer_pair_energy()
(in
OnTheFlyNode
)
criteria_match_i()
(in
BinTransitionData
)
clear_info()
(in
ClientMover
)
compute_rotamer_pair_energy()
(in
SymmOnTheFlyNode
)
criteria_match_iplus1()
(in
BinTransitionData
)
clear_info()
(in
CoMTrackerCM
)
compute_rotdensities()
(in
PerturbRotamerSidechainMover
)
CriticalFailure
(in
rosetta.protocols.loops.loop_mover
)
clear_info()
(in
EnvMover
)
compute_samebbconf_alternate_state_energy_first_node()
(in
OTFFlexbbEdge
)
CriticalFailure
(in
rosetta.protocols.loops.loop_mover._protocols_loops_loop_mover_
)
clear_info()
(in
ScriptCM
)
compute_samebbconf_alternate_state_energy_second_node()
(in
OTFFlexbbEdge
)
CriticalFailure
(in
LoopResult
)
clear_info()
(in
MultipleDomainMover
)
compute_sasa()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
cross()
(in
xyzTriple_Real
)
clear_info()
(in
RNA_DeNovoProtocol
)
compute_sasapack_scores()
(in
rosetta.protocols.sasa_scores._protocols_sasa_scores_
)
cross()
(in
xyzTriple_SSize
)
clear_info()
(in
RNA_FragmentMover
)
compute_sc_centroid()
(in
rosetta.core.scoring._core_scoring_
)
cross()
(in
xyzTriple_Size
)
clear_info()
(in
RNA_LoopCloser
)
compute_sc_radius()
(in
rosetta.core.scoring._core_scoring_
)
cross()
(in
xyzTriple_double
)
clear_info()
(in
RNA_Minimizer
)
compute_size()
(in
InputStreamWithResidueInfo
)
cross()
(in
xyzTriple_float
)
clear_info()
(in
RNA_Relaxer
)
compute_smooth_nb()
(in
PoseBalls
)
cross()
(in
xyzVector_Real
)
clear_info()
(in
ReportToDB
)
compute_ss_regions()
(in
rosetta.protocols.loops._protocols_loops_
)
cross()
(in
xyzVector_SSize
)
clear_info()
(in
TrajectoryReportToDB
)
compute_structure_based_embedding()
(in
rosetta.protocols.membrane.geometry._protocols_membrane_geometry_
)
cross()
(in
xyzVector_Size
)
clear_info()
(in
SetupForFibrilMover
)
compute_surface_area_leerichards()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
cross()
(in
xyzVector_double
)
clear_info()
(in
BluePrintBDR
)
compute_surface_area_leerichards_deriv()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
cross()
(in
xyzVector_float
)
clear_info()
(in
CircularPermutation
)
compute_surrounding_sasa()
(in
MultiProbePerSphereAccumulator
)
cross()
(in
rosetta.numeric.kinematic_closure._numeric_kinematic_closure_
)
clear_info()
(in
MatchResiduesMover
)
compute_surrounding_sasa()
(in
rosetta.core.scoring.packstat._core_scoring_packstat_
)
cross_angle()
(in
HelixPairing
)
clear_info()
(in
SheetConstraintsRCG
)
compute_symm_rotations()
(in
ElectronDensity
)
cross_over()
(in
BetaAlphaBetaMotif
)
clear_info()
(in
SetAACompositionPotential
)
compute_tensor_stats()
(in
ResidualDipolarCoupling
)
cross_product()
(in
xyzTriple_Real
)
clear_info()
(in
SetSecStructEnergies
)
compute_termini_penalty()
(in
MPTerminiPenalty
)
cross_product()
(in
xyzTriple_SSize
)
clear_info()
(in
FlexPacker
)
compute_tmproj_penalty()
(in
MPTMProjPenalty
)
cross_product()
(in
xyzTriple_Size
)
clear_info()
(in
FlexPepDockingAbInitio
)
compute_total_score()
(in
ResidualDipolarCouplingRigidSegments
)
cross_product()
(in
xyzTriple_double
)
clear_info()
(in
FlexPepDockingLowRes
)
compute_ub_function_solution()
(in
Interpolator
)
cross_product()
(in
xyzTriple_float
)
clear_info()
(in
FlexPepDockingProtocol
)
compute_zero_intensity()
(in
SAXSEnergy
)
cross_product()
(in
xyzVector_Real
)
clear_info()
(in
FloppyTailMover
)
computeAllBoltz()
(in
RotamerBoltzCalculator
)
cross_product()
(in
xyzVector_SSize
)
clear_info()
(in
FlxbbDesign
)
computeBoltzWeight()
(in
RotamerBoltzCalculator
)
cross_product()
(in
xyzVector_Size
)
clear_info()
(in
FlxbbDesignPack
)
computeGunnTuples()
(in
GunnCostScore
)
cross_product()
(in
xyzVector_double
)
clear_info()
(in
InterlockAroma
)
ComputeLigandRDF
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
cross_product()
(in
xyzVector_float
)
clear_info()
(in
BDR
)
ComputeLigandRDFAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
cross_product_helper()
(in
AssignOrbitals
)
clear_info()
(in
VarLengthBuild
)
ComputeLigandRDFCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
crossover()
(in
TrieCountPairGeneric
)
clear_info()
(in
RemodelConstraintGenerator
)
ComputeLigandRDFCreator
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
crossover()
(in
DiscreteRandomizer
)
clear_info()
(in
NonlocalFrags
)
ComputeLigandRDFCreatorAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
crossover()
(in
EntityRandomizer
)
clear_info()
(in
TorsionFragmentMover
)
ComputeLigandRDFCreatorCAP
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
crossover()
(in
Mutate1Randomizer
)
clear_info()
(in
GeneralizedKIC
)
CoMTrackerCM
(in
rosetta.protocols.environment._protocols_environment_
)
crossover()
(in
PositionSpecificRandomizer
)
clear_info()
(in
AnchoredGraftMover
)
CoMTrackerCMAP
(in
rosetta.protocols.environment._protocols_environment_
)
CRYO_ELECTRON_MICROSCOPY
(in
HeaderInformation
)
clear_info()
(in
CCDEndsGraftMover
)
CoMTrackerCMCAP
(in
rosetta.protocols.environment._protocols_environment_
)
CRYO_ELECTRON_MICROSCOPY
(in
ExperimentalTechnique
)
clear_info()
(in
GraftMoverBase
)
CoMTrackerCMCreator
(in
rosetta.protocols.environment._protocols_environment_
)
cryst
(in
rosetta.core.scoring
)
clear_info()
(in
DeleteRegionMover
)
CoMTrackerCMCreatorAP
(in
rosetta.protocols.environment._protocols_environment_
)
cryst
(in
rosetta.protocols
)
clear_info()
(in
InsertPoseIntoPoseMover
)
CoMTrackerCMCreatorCAP
(in
rosetta.protocols.environment._protocols_environment_
)
CrystalContactsOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
clear_info()
(in
KeepRegionMover
)
concatenate_topology()
(in
SpanningTopology
)
CrystalContactsOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
clear_info()
(in
ReplaceRegionMover
)
concepts
(in
rosetta.core.fragment.picking_old
)
CrystalContactsOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
clear_info()
(in
BackboneGridSampler
)
ConcurrencyTest
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
CrystalContactsOperationCreator
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
clear_info()
(in
BundleGridSampler
)
ConcurrencyTestAP
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
CrystalContactsOperationCreatorAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
clear_info()
(in
FitSimpleHelix
)
ConcurrencyTestCAP
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
CrystalContactsOperationCreatorCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
clear_info()
(in
MakeBundle
)
ConcurrencyTestCreator
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
CrystInfo
(in
rosetta.core.pose._core_pose_
)
clear_info()
(in
MakeBundleHelix
)
ConcurrencyTestCreatorAP
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
crystinfo()
(in
PDBInfo
)
clear_info()
(in
PerturbBundle
)
ConcurrencyTestCreatorCAP
(in
rosetta.protocols.features.helixAssembly._protocols_features_helixAssembly_
)
CrystInfoAP
(in
rosetta.core.pose._core_pose_
)
clear_info()
(in
PerturbBundleHelix
)
condition()
(in
ITEExpression
)
CrystInfoCAP
(in
rosetta.core.pose._core_pose_
)
clear_info()
(in
BackboneTorsionPerturbation
)
conditional_erase()
(in
PDBPoseMap
)
CS2ndShift
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
BackboneTorsionSampler
)
conditionally_add_edge()
(in
ContextGraph
)
CS2ndShiftAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
CartesianHybridize
)
conditionally_add_edge()
(in
TenANeighborGraph
)
CS2ndShiftCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
CartesianSampler
)
conditionally_add_edge()
(in
TwelveANeighborGraph
)
CSA
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
ChunkTrialMover
)
conf2pdb_chain()
(in
rosetta.core.pose._core_pose_
)
csa
(in
ScoreType
)
clear_info()
(in
DomainAssembly
)
conf_size()
(in
DockingEnsemble
)
csa
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
FoldTreeHybridize
)
confidence()
(in
SecondaryStructure
)
csa
(in
rosetta.core.scoring
)
clear_info()
(in
HybridizeProtocol
)
config
(in
rosetta
)
csa
(in
rosetta
)
clear_info()
(in
InsertChunkMover
)
config_file_name
(in
rosetta
)
CSAAP
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
MRMover
)
conformation
(in
rosetta.core
)
CSACAP
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
WeightedFragmentSmoothTrialMover
)
Conformation
(in
rosetta.core.conformation._core_conformation_
)
CSAcomputed()
(in
CSA
)
clear_info()
(in
WeightedFragmentTrialMover
)
conformation()
(in
Pose
)
CSAerr()
(in
CSA
)
clear_info()
(in
IdealizeMover
)
CONFORMATION_COPY
(in
rosetta.basic
)
CSAval()
(in
CSA
)
clear_info()
(in
BalancedKicMover
)
CONFORMATION_COPY
(in
rosetta.basic._basic_
)
csca
(in
atomitem
)
clear_info()
(in
KicMover
)
CONFORMATION_COPY
(in
ProfTag
)
csca
(in
rosetta.core.scoring.rna.chemical_shift._core_scoring_rna_chemical_shift_
)
clear_info()
(in
AddHydrogen
)
CONFORMATION_DETECT_DISULF
(in
rosetta.basic
)
csca
(in
rosetta.core.scoring.rna.chemical_shift
)
clear_info()
(in
AddHydrogens
)
CONFORMATION_DETECT_DISULF
(in
rosetta.basic._basic_
)
CSI_Sequence
(in
rosetta.utility._utility_
)
clear_info()
(in
CompoundTranslate
)
CONFORMATION_DETECT_DISULF
(in
ProfTag
)
CSI_SequenceAP
(in
rosetta.utility._utility_
)
clear_info()
(in
ComputeLigandRDF
)
conformation_energy()
(in
Constraints
)
CSI_SequenceCAP
(in
rosetta.utility._utility_
)
clear_info()
(in
FinalMinimizer
)
CONFORMATION_FIX_DISULF
(in
rosetta.basic
)
CSScore
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
clear_info()
(in
GrowLigand
)
CONFORMATION_FIX_DISULF
(in
rosetta.basic._basic_
)
CSScoreAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
clear_info()
(in
HighResDocker
)
CONFORMATION_FIX_DISULF
(in
ProfTag
)
CSScoreCAP
(in
rosetta.protocols.frag_picker.scores._protocols_frag_picker_scores_
)
clear_info()
(in
InterfaceScoreCalculator
)
conformation_ptr()
(in
Pose
)
cst_block()
(in
CstResInteractions
)
clear_info()
(in
LigandDesign
)
ConformationAP
(in
rosetta.core.conformation._core_conformation_
)
cst_block()
(in
EnzConstraintParameters
)
clear_info()
(in
MinimizeBackbone
)
ConformationCAP
(in
rosetta.core.conformation._core_conformation_
)
cst_cache()
(in
EnzdesCacheableObserver
)
clear_info()
(in
MinimizeLigand
)
ConformationEvent
(in
rosetta.core.pose.signals._core_pose_signals_
)
cst_file()
(in
ConstraintPreparer
)
clear_info()
(in
RandomConformerMover
)
conformationEvent()
(in
PyMolObserver
)
cst_interactions()
(in
EnzdesLoopInfo
)
clear_info()
(in
RandomConformers
)
ConformationEventAP
(in
rosetta.core.pose.signals._core_pose_signals_
)
cst_io()
(in
OutputWriter
)
clear_info()
(in
RigidSearchMover
)
ConformationEventCAP
(in
rosetta.core.pose.signals._core_pose_signals_
)
cst_max_seq_sep()
(in
EnergyMethodOptions
)
clear_info()
(in
Rotate
)
ConformationKinWriter
(in
rosetta.core.conformation._core_conformation_
)
cst_on_pose()
(in
MDBase
)
clear_info()
(in
Rotates
)
ConformationKinWriterAP
(in
rosetta.core.conformation._core_conformation_
)
cst_on_pose_dynamic()
(in
CartesianMD
)
clear_info()
(in
SlideTogether
)
ConformationKinWriterCAP
(in
rosetta.core.conformation._core_conformation_
)
cst_on_pose_simple()
(in
CartesianMD
)
clear_info()
(in
StartFrom
)
ConformationXYZ
(in
rosetta.core.scoring.func._core_scoring_func_
)
cst_res_data
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
TetherLigand
)
ConformationXYZAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
cst_res_data
(in
min_single_data
)
clear_info()
(in
Transform
)
ConformationXYZCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
cst_res_data
(in
rosetta.core.scoring
)
clear_info()
(in
Translate
)
conformers_for_ring_size()
(in
RingConformerManager
)
cst_res_data
(in
rosetta
)
clear_info()
(in
UnconstrainedTorsionsMover
)
ConformerSwitchMover
(in
rosetta.protocols.docking._protocols_docking_
)
cst_residue_in_pose()
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
clear_info()
(in
WriteLigandMolFile
)
ConformerSwitchMoverAP
(in
rosetta.protocols.docking._protocols_docking_
)
cst_respair_data
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
LoopBuildMover
)
ConformerSwitchMoverCAP
(in
rosetta.protocols.docking._protocols_docking_
)
cst_respair_data
(in
min_pair_data
)
clear_info()
(in
LoopmodelWrapper
)
ConformerSwitchMoverCreator
(in
rosetta.protocols.docking._protocols_docking_
)
cst_respair_data
(in
rosetta.core.scoring
)
clear_info()
(in
LoopBuilder
)
ConformerSwitchMoverCreatorAP
(in
rosetta.protocols.docking._protocols_docking_
)
cst_respair_data
(in
rosetta
)
clear_info()
(in
LoopModeler
)
ConformerSwitchMoverCreatorCAP
(in
rosetta.protocols.docking._protocols_docking_
)
cst_sd()
(in
AtomCoordinateCstMover
)
clear_info()
(in
LoopMover
)
conj_map_times()
(in
rosetta.core.scoring.electron_density._core_scoring_electron_density_
)
cst_sdev()
(in
NormalModeRelaxMover
)
clear_info()
(in
LoopProtocol
)
conjugability()
(in
Bond
)
cst_set()
(in
FullModelParameters
)
clear_info()
(in
MinimizationRefiner
)
ConjugableBond
(in
rosetta
)
cst_sidechain()
(in
AtomCoordinateCstMover
)
clear_info()
(in
RepackingRefiner
)
ConjugableBond
(in
rosetta.core.chemical
)
cst_string()
(in
FullModelParameters
)
clear_info()
(in
RotamerTrialsRefiner
)
ConjugableBond
(in
BondConjugability
)
cst_type()
(in
TaskAwareCsts
)
clear_info()
(in
LegacyKicSampler
)
ConjugableBond
(in
rosetta.core.chemical._core_chemical_
)
cst_weight()
(in
AddConstraintsToCurrentConformationMover
)
clear_info()
(in
AcceptanceCheck
)
conjugate()
(in
Quaternion_Real
)
cst_width()
(in
AtomCoordinateCstMover
)
clear_info()
(in
LoopFilter
)
conjugate()
(in
Quaternion_double
)
CstAction
(in
rosetta.protocols.enzdes._protocols_enzdes_'
)
clear_info()
(in
LoopMoverGroup
)
conjugate()
(in
Quaternion_float
)
CSTalosIO
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
PrepareForCentroid
)
conjugated
(in
Quaternion_Real
)
CSTalosIOAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
PrepareForFullatom
)
conjugated
(in
Quaternion_double
)
CSTalosIOCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
FastGapMover
)
conjugated
(in
Quaternion_float
)
cstAtoms()
(in
ResiduePairJump
)
clear_info()
(in
LoopHashDiversifier
)
conn_dat()
(in
CountPairDataGeneric
)
cstAtoms()
(in
ResiduePairJumpSingle
)
clear_info()
(in
LoopHashLibrary
)
conn_dist()
(in
CountPairDataGeneric
)
cstAtoms_defined()
(in
ResiduePairJump
)
clear_info()
(in
LoopHashMoverWrapper
)
conn_dist()
(in
CountPairData_1_1
)
cstAtoms_defined()
(in
ResiduePairJumpSingle
)
clear_info()
(in
LoopHashRelaxProtocol
)
conn_dist()
(in
CountPairData_1_2
)
CstEnergyContainer
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
Mover_LoopHashRefine
)
conn_dist()
(in
CountPairData_1_3
)
CstEnergyContainerAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
FoldTreeFromLoops
)
CONNECT
(in
ICoorAtomID
)
CstEnergyContainerCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
CCDLoopClosureMover
)
CONNECT
(in
Type
)
cstfile_name()
(in
MatcherTask
)
clear_info()
(in
FASelectSlidingWindowLoopClosure
)
connect()
(in
SmallMol
)
cstfile_name()
(in
PDBWriter
)
clear_info()
(in
SlidingWindowLoopClosure
)
connect_atom()
(in
Residue
)
cstInfoMap_defined()
(in
ResiduePairJump
)
clear_info()
(in
WidthFirstSlidingWindowLoopClosure
)
connect_map()
(in
Residue
)
cstJump
(in
rosetta.protocols.jumping._protocols_jumping_
)
clear_info()
(in
KinematicMover
)
connect_map_size()
(in
Residue
)
cstJump
(in
dofType
)
clear_info()
(in
KinematicWrapper
)
connected()
(in
FoldTree
)
cstJump
(in
rosetta.protocols.jumping
)
clear_info()
(in
LoopCM
)
connected()
(in
SmallMol
)
CstMinimizationData
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
LoopRefineInnerCycle
)
connected_by_twobonds()
(in
GoapRsdType
)
CstMinimizationDataAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
LoopRefineInnerCycleContainer
)
connected_components()
(in
HitNeighborFinder
)
CstMinimizationDataCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
RepackTrial
)
connected_residue_at_resconn()
(in
Residue
)
CstResInteractions
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
clear_info()
(in
ShearMinCCDTrial
)
connection
(in rosetta.protocols.stepwise.legacy.modeler.rna)
CstResInteractionsAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
clear_info()
(in
SmallMinCCDTrial
)
connection_distance()
(in
Residue
)
CstResInteractionsCAP
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
clear_info()
(in
MakeRotLibMover
)
connection_exists_to_residue()
(in
RotamerTrieBase
)
CstResNeighbConstIterator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
MatcherMover
)
connection_id_for_residue()
(in
RotamerTrieBase
)
CstResNeighbConstIteratorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
ExtractSubposeMover
)
connection_incomplete()
(in
Residue
)
CstResNeighbConstIteratorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
MatDesGreedyOptMutationMover
)
connection_index()
(in
MMBondAngleResidueTypeParam
)
CstResNeighbIterator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
SchemePlaceMotifsMover
)
connection_pair()
(in
MMBondAngleResidueTypeParam
)
CstResNeighbIteratorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
SymDofMover
)
connection_theta0()
(in
MMBondAngleResidueTypeParam
)
CstResNeighbIteratorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
CartesianMD
)
connection_use_theta0()
(in
MMBondAngleResidueTypeParam
)
cstType
(in
rosetta.protocols.jumping._protocols_jumping_
)
clear_info()
(in
MDBase
)
ConnectionEvent
(in
rosetta.core.conformation.signals._core_conformation_signals_
)
CtabParserBase
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
MedalExchangeMover
)
ConnectionEventAP
(in
rosetta.core.conformation.signals._core_conformation_signals_
)
CtabParserBaseAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
MedalMover
)
ConnectionEventCAP
(in
rosetta.core.conformation.signals._core_conformation_signals_
)
CtabParserBaseCAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
AddMPLigandMover
)
connections()
(in
RNA_StructureParameters
)
CtabV2000Parser
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
AddMembraneMover
)
connections_match()
(in
Residue
)
CtabV2000ParserAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
FlipMover
)
connections_to_residue()
(in
Residue
)
CtabV2000ParserCAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
MembranePositionFromTopologyMover
)
connectivity_index()
(in
ResidueNetwork
)
CtabV3000Parser
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
RandomPositionRotationMover
)
ConnectRight
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
CtabV3000ParserAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
RandomPositionTranslationMover
)
ConnectRightAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
CtabV3000ParserCAP
(in
rosetta.core.chemical.sdf._core_chemical_sdf_
)
clear_info()
(in
RotationMover
)
ConnectRightCAP
(in
rosetta.protocols.forge.build._protocols_forge_build_'
)
CTERM_CONNECT
(in
rosetta
)
clear_info()
(in
SetMembraneCenterMover
)
connid()
(in
ResConnID
)
CTERM_CONNECT
(in
rosetta.core.chemical
)
clear_info()
(in
SetMembraneNormalMover
)
connid_for_entry_connpoint()
(in
CPDataCorrespondence
)
CTERM_CONNECT
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
SetMembranePositionMover
)
ConsensusDesignMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
CTERM_CONNECT
(in
VariantType
)
clear_info()
(in
TransformIntoMembraneMover
)
ConsensusDesignMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
ctrl_strength()
(in
TorsionClaim
)
clear_info()
(in
TranslationMover
)
ConsensusDesignMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
ctrl_strength()
(in
XYZClaim
)
clear_info()
(in
TranslationRotationMover
)
ConsensusDesignMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
cubic_interpolation()
(in
LineMinimizationAlgorithm
)
clear_info()
(in
SymmetricAddMembraneMover
)
ConsensusDesignMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
cubic_polynomial_deriv()
(in
Etable
)
clear_info()
(in
VisualizeEmbeddingMover
)
ConsensusDesignMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
cubic_polynomial_from_spline()
(in
Etable
)
clear_info()
(in
VisualizeMembraneMover
)
conservation_cutoff_aligned_segments()
(in
SeqprofConsensusOperation
)
CubicPolynomial
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
clear_info()
(in
ZincHeterodimerMover
)
conservation_cutoff_protein_interface_design()
(in
SeqprofConsensusOperation
)
CubicPolynomialAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
clear_info()
(in
MotifGraftMover
)
ConservativeDesignOperation
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
CubicPolynomialCAP
(in
rosetta.core.scoring.etable._core_scoring_etable_
)
clear_info()
(in
MotifDnaPacker
)
ConservativeDesignOperationAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
CubicSpline
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
clear_info()
(in
CompositionMover
)
ConservativeDesignOperationCAP
(in
rosetta.protocols.toolbox.task_operations._protocols_toolbox_task_operations_
)
CubicSplineAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
clear_info()
(in
CycleMover
)
ConservedPosMutationFilter
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
CubicSplineCAP
(in
rosetta.numeric.interpolation.spline._numeric_interpolation_spline_
)
clear_info()
(in
CyclicMover
)
ConservedPosMutationFilterAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
cull_mutatable_residues()
(in
VIP_Mover
)
clear_info()
(in
DsspMover
)
ConservedPosMutationFilterCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
cull_violators()
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
clear_info()
(in
FilterMover
)
ConservedPosMutationFilterCreator
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
cull_violators()
(in
Template
)
clear_info()
(in
FilterReporterMover
)
ConservedPosMutationFilterCreatorAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
cummulative_time()
(in
MDBase
)
clear_info()
(in
IfMover
)
ConservedPosMutationFilterCreatorCAP
(in
rosetta.protocols.simple_filters._protocols_simple_filters_
)
cumulate_jobs()
(in
MetricRecorder
)
clear_info()
(in
IteratedConvergenceMover
)
consider_backbone_move()
(in
FlexbbInteractionGraph
)
cumulate_jobs()
(in
TrajectoryRecorder
)
clear_info()
(in
JumpOutMover
)
consider_backbone_move()
(in
MinimalistFlexbbInteractionGraph
)
cumulate_probability()
(in
FragmentBiasAssigner
)
clear_info()
(in
MCShowMover
)
consider_bbmove_w_state_substitution()
(in
FlexbbInteractionGraph
)
cumulate_replicas()
(in
MetricRecorder
)
clear_info()
(in
MonteCarloUtil
)
consider_bbmove_w_state_substitution()
(in
MinimalistFlexbbInteractionGraph
)
cumulate_replicas()
(in
TrajectoryRecorder
)
clear_info()
(in
MoveMapMover
)
consider_substitution()
(in
DensePDInteractionGraph
)
cur_energy()
(in
FlexbbEdge
)
clear_info()
(in
Mover
)
consider_substitution()
(in
DoubleDensePDInteractionGraph
)
curr_bb()
(in
FlexbbNode
)
clear_info()
(in
MoverApplyingMover
)
consider_substitution()
(in
DoubleLazyInteractionGraph
)
curr_gen_entity()
(in
GeneticAlgorithmBase
)
clear_info()
(in
MoverContainer
)
consider_substitution()
(in
FASTERInteractionGraph
)
curr_num_in_recent_history()
(in
recent_history_queue
)
clear_info()
(in
MoverForPoseList
)
consider_substitution()
(in
InteractionGraphBase
)
curr_sc_centroid()
(in
SimpleNode
)
clear_info()
(in
NullMover
)
consider_substitution()
(in
LazyInteractionGraph
)
curr_sc_radius()
(in
SimpleNode
)
clear_info()
(in
PDBDumpMover
)
consider_substitution()
(in
LinearMemoryInteractionGraph
)
curr_state_energy()
(in
SymmMinimalistEdge
)
clear_info()
(in
ProfilerMover
)
consider_substitution()
(in
PDInteractionGraph
)
curr_state_one_body_energy()
(in
FlexbbNode
)
clear_info()
(in
PyMolMover
)
consider_substitution()
(in
SimpleInteractionGraph
)
curr_state_total_energy()
(in
FlexbbNode
)
clear_info()
(in
RampingMover
)
consider_substitution()
(in
SymmLinearMemoryInteractionGraph
)
curr_state_two_body_energies()
(in
FlexbbNode
)
clear_info()
(in
RandomMover
)
consider_substitution()
(in
SymmMinimalistInteractionGraph
)
current_acceptance_ratio()
(in
ArchiveBase
)
clear_info()
(in
RepeatMover
)
consider_substitution()
(in
MinimalistFlexbbInteractionGraph
)
current_batch()
(in
rosetta.protocols.jd2._protocols_jd2_
)
clear_info()
(in
SequenceMover
)
consolidate_matches()
(in
MatcherTask
)
current_batch_id()
(in
JobDistributor
)
clear_info()
(in
StructureRestrictor
)
const_begin()
(in
EdgeList
)
current_cycle_number()
(in
LoopMover_Refine_CCD
)
clear_info()
(in
TrialMover
)
const_edge()
(in
EdgeListElement
)
current_distance()
(in
LoopScoreInfo
)
clear_info()
(in
VectorPoseMover
)
const_edge_list_begin()
(in
Graph
)
current_dna_design_string()
(in
DnaInterfacePacker
)
clear_info()
(in
WhileMover
)
const_edge_list_begin()
(in
Node
)
current_generation()
(in
GeneticAlgorithmBase
)
clear_info()
(in
StructAvrgMover
)
const_edge_list_end()
(in
Graph
)
current_generation_begin()
(in
GeneticAlgorithmBase
)
clear_info()
(in
NcbbDockDesignProtocol
)
const_edge_list_end()
(in
Node
)
current_generation_complete()
(in
GeneticAlgorithm
)
clear_info()
(in
OopCreatorMover
)
const_end()
(in
EdgeList
)
current_generation_complete()
(in
GeneticAlgorithmBase
)
clear_info()
(in
OopDockDesignProtocol
)
const_full_model_info()
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
current_generation_end()
(in
GeneticAlgorithmBase
)
clear_info()
(in
CartesianNormalModeMover
)
const_full_to_sub()
(in
StepWiseBasicWorkingParameters
)
current_job()
(in
JobDistributor
)
clear_info()
(in
NormalModeMinimizer
)
const_last()
(in
EdgeList
)
current_job()
(in
MSDJobDistributor
)
clear_info()
(in
NormalModeRelaxMover
)
const_location()
(in
KDPoint
)
current_job_finished()
(in
FileSystemJobDistributor
)
clear_info()
(in
TorsionNormalModeMover
)
const_lower_edge_list_begin()
(in
Node
)
current_job_id()
(in
JobDistributor
)
clear_info()
(in
SetupPoissonBoltzmannPotential
)
const_lower_edge_list_end()
(in
Node
)
current_kinematics()
(in
KinematicTaskControl
)
clear_info()
(in
AddChainBreak
)
const_neighbor_iterator_begin()
(in
DenseEnergyContainer
)
current_mem()
(in
WUQueue
)
clear_info()
(in
AddSidechainConstraintsToHotspots
)
const_neighbor_iterator_begin()
(in
LREnergyContainer
)
current_one_body_energy()
(in
SimpleNode
)
clear_info()
(in
BackrubDDMover
)
const_neighbor_iterator_begin()
(in
OneToAllEnergyContainer
)
current_output_filename()
(in
rosetta.protocols.jd2._protocols_jd2_
)
clear_info()
(in
BestHotspotCstMover
)
const_neighbor_iterator_begin()
(in
PeptideBondedEnergyContainer
)
current_output_name()
(in
JobDistributor
)
clear_info()
(in
BuildAlaPose
)
const_neighbor_iterator_begin()
(in
CstEnergyContainer
)
current_output_name()
(in
rosetta.protocols.jd2._protocols_jd2_
)
clear_info()
(in
DesignMinimizeHbonds
)
const_neighbor_iterator_begin()
(in
CentroidDisulfideEnergyContainer
)
current_replica()
(in
rosetta.protocols.jd2._protocols_jd2_
)
clear_info()
(in
DisulfideMover
)
const_neighbor_iterator_begin()
(in
DisulfideMatchingEnergyContainer
)
current_rotamer_coords()
(in
ContinuousRotamerSet
)
clear_info()
(in
DockAndRetrieveSidechains
)
const_neighbor_iterator_begin()
(in
FullatomDisulfideEnergyContainer
)
current_score()
(in
GenericMonteCarloMover
)
clear_info()
(in
DockWithHotspotMover
)
const_neighbor_iterator_end()
(in
DenseEnergyContainer
)
current_scorefxn()
(in
FragmentSampler
)
clear_info()
(in
FavorNativeResiduePreCycle
)
const_neighbor_iterator_end()
(in
LREnergyContainer
)
current_size()
(in
ABEGO_SS_Pool
)
clear_info()
(in
FavorNonNativeResiduePreCycle
)
const_neighbor_iterator_end()
(in
OneToAllEnergyContainer
)
current_size()
(in
QuotaPool
)
clear_info()
(in
HotspotDisjointedFoldTreeMover
)
const_neighbor_iterator_end()
(in
PeptideBondedEnergyContainer
)
current_size()
(in
SecondaryStructurePool
)
clear_info()
(in
HotspotHasherMover
)
const_neighbor_iterator_end()
(in
CstEnergyContainer
)
current_state()
(in
FlexbbNode
)
clear_info()
(in
InterfaceRecapitulationMover
)
const_neighbor_iterator_end()
(in
CentroidDisulfideEnergyContainer
)
current_state_info()
(in
FlexbbNode
)
clear_info()
(in
LoopFinder
)
const_neighbor_iterator_end()
(in
DisulfideMatchingEnergyContainer
)
current_trial()
(in
MetropolisHastingsMover
)
clear_info()
(in
LoopLengthChange
)
const_neighbor_iterator_end()
(in
FullatomDisulfideEnergyContainer
)
current_trial()
(in
FilterStructs
)
clear_info()
(in
LoopMoverFromCommandLine
)
const_next()
(in
EdgeListElement
)
current_working_sequence()
(in
DnaInterfacePacker
)
clear_info()
(in
LoopOver
)
const_previous()
(in
EdgeListElement
)
custom_angle()
(in
BackrubMover
)
clear_info()
(in
LoopRemodel
)
const_residues()
(in
Conformation
)
custom_atom_pair
(in
ScoreType
)
clear_info()
(in
MapHotspot
)
const_state()
(in
WorkUnit_ElScripts
)
custom_atom_pair
(in
rosetta.core.scoring._core_scoring_
)
clear_info()
(in
PatchdockTransform
)
const_sub_to_full()
(in
StepWiseBasicWorkingParameters
)
custom_atom_pair
(in
rosetta.core.scoring
)
clear_info()
(in
PeptideStapleDesignMover
)
const_upper_edge_list_begin()
(in
Node
)
custom_atom_pair
(in
rosetta
)
clear_info()
(in
PlaceOnLoop
)
const_upper_edge_list_end()
(in
Node
)
CUSTOM_PAIR_DIST_SCORE_INFO
(in
CacheableDataType
)
clear_info()
(in
PlaceSimultaneouslyMover
)
const_upper_neighbor_iterator_begin()
(in
DenseEnergyContainer
)
CUSTOM_PAIR_DIST_SCORE_INFO
(in
Enum
)
clear_info()
(in
PlaceStubMover
)
const_upper_neighbor_iterator_begin()
(in
LREnergyContainer
)
custom_pair_distance
(in
rosetta.core.scoring
)
clear_info()
(in
PlacementAuctionMover
)
const_upper_neighbor_iterator_begin()
(in
OneToAllEnergyContainer
)
CustomAtomPairEnergy
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clear_info()
(in
PlacementMinimizationMover
)
const_upper_neighbor_iterator_begin()
(in
PeptideBondedEnergyContainer
)
CustomAtomPairEnergyAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clear_info()
(in
PrepackMover
)
const_upper_neighbor_iterator_begin()
(in
CstEnergyContainer
)
CustomAtomPairEnergyCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clear_info()
(in
ProteinInterfaceMultiStateDesignMover
)
const_upper_neighbor_iterator_begin()
(in
CentroidDisulfideEnergyContainer
)
CustomAtomPairEnergyCreator
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clear_info()
(in
RandomMutation
)
const_upper_neighbor_iterator_begin()
(in
DisulfideMatchingEnergyContainer
)
CustomAtomPairEnergyCreatorAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clear_info()
(in
RepackMinimize
)
const_upper_neighbor_iterator_begin()
(in
FullatomDisulfideEnergyContainer
)
CustomAtomPairEnergyCreatorCAP
(in
rosetta.core.scoring.methods._core_scoring_methods_
)
clear_info()
(in
SaveAndRetrieveSidechains
)
const_upper_neighbor_iterator_end()
(in
DenseEnergyContainer
)
CustomScoreSelector
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
SetAtomTree
)
const_upper_neighbor_iterator_end()
(in
LREnergyContainer
)
CustomScoreSelectorAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
SetTemperatureFactor
)
const_upper_neighbor_iterator_end()
(in
OneToAllEnergyContainer
)
CustomScoreSelectorCAP
(in
rosetta.protocols.frag_picker._protocols_frag_picker_
)
clear_info()
(in
SetupHotspotConstraintsLoopsMover
)
const_upper_neighbor_iterator_end()
(in
PeptideBondedEnergyContainer
)
cut()
(in
JumpClaim
)
clear_info()
(in
SetupHotspotConstraintsMover
)
const_upper_neighbor_iterator_end()
(in
CstEnergyContainer
)
cut()
(in
Loop
)
clear_info()
(in
ShoveResidueMover
)
const_upper_neighbor_iterator_end()
(in
CentroidDisulfideEnergyContainer
)
cut_bond()
(in
Bond
)
clear_info()
(in
SpinMover
)
const_upper_neighbor_iterator_end()
(in
DisulfideMatchingEnergyContainer
)
cut_bond_neighbor()
(in
ResidueType
)
clear_info()
(in
SubroutineMover
)
const_upper_neighbor_iterator_end()
(in
FullatomDisulfideEnergyContainer
)
cut_bond_neighbor()
(in
Residue
)
clear_info()
(in
TaskAwareCsts
)
ConstAbinitioMoverWeight
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
cut_point
(in
rosetta
)
clear_info()
(in
TopologyBrokerMover
)
ConstAbinitioMoverWeightAP
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
cut_point
(in
ResidueIdentifier
)
clear_info()
(in
TryRotamers
)
ConstAbinitioMoverWeightCAP
(in
rosetta.protocols.topology_broker.weights._protocols_topology_broker_weights_
)
cut_point
(in
rosetta.protocols.loops._protocols_loops_
)
clear_info()
(in
VLB
)
constant_constraint
(in
rosetta
)
cut_point
(in
rosetta.protocols.loops
)
clear_info()
(in
AutoRBMover
)
constant_constraint
(in
ScoreType
)
cut_residue()
(in
ClosureProblem
)
clear_info()
(in
FragInsertAndAlignMover
)
constant_constraint
(in
rosetta.core.scoring._core_scoring_
)
CutBiasClaim
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
GaussianRBSegmentMover
)
constant_constraint
(in
rosetta.core.scoring
)
CutBiasClaimAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
HelicalGaussianMover
)
ConstantConstraint
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CutBiasClaimCAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
IdealizeHelicesMover
)
ConstantConstraintAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CutBiasElement
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
MakeStarTopologyMover
)
ConstantConstraintCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CutBiasElementAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
OptimizeThreadingMover
)
ConstantFunc
(in
rosetta.core.scoring.func._core_scoring_func_
)
CutBiasElementCAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
RBSegmentMover
)
ConstantFuncAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
CutChainMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
RBSegmentRelax
)
ConstantFuncCAP
(in
rosetta.core.scoring.func._core_scoring_func_
)
CutChainMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
SequenceShiftMover
)
ConstantLengthFragSet
(in
rosetta.core.fragment._core_fragment_
)
CutChainMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
StrandTwistingMover
)
ConstantLengthFragSetAP
(in
rosetta.core.fragment._core_fragment_
)
CutChainMoverCreator
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
AtomCoordinateCstMover
)
ConstantLengthFragSetCAP
(in
rosetta.core.fragment._core_fragment_
)
CutChainMoverCreatorAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
CentroidRelax
)
ConstantLengthFragSetIterator_
(in
rosetta.core.fragment._core_fragment_
)
CutChainMoverCreatorCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
ClassicRelax
)
ConstantLengthFragSetIterator_AP
(in
rosetta.core.fragment._core_fragment_
)
CutClaim
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
clear_info()
(in
FastRelax
)
ConstantLengthFragSetIterator_CAP
(in
rosetta.core.fragment._core_fragment_
)
CutClaimAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
clear_info()
(in
LocalRelax
)
ConstFrameIterator
(in
rosetta.core.fragment._core_fragment_
)
CutClaimCAP
(in
rosetta.protocols.topology_broker.claims._protocols_topology_broker_claims_
)
clear_info()
(in
MiniRelax
)
ConstFrameIteratorAP
(in
rosetta.core.fragment._core_fragment_
)
CutElement
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
RelaxProtocolBase
)
ConstFrameIteratorCAP
(in
rosetta.core.fragment._core_fragment_
)
CutElementAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
MPFastRelaxMover
)
ConstPattern
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
CutElementCAP
(in
rosetta.protocols.environment.claims._protocols_environment_claims_
)
clear_info()
(in
MembraneCenterPerturbationMover
)
ConstPatternAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
cutoff()
(in
CenHBPotential
)
clear_info()
(in
MembraneNormalPerturbationMover
)
ConstPatternCAP
(in
rosetta.protocols.hotspot_hashing._protocols_hotspot_hashing_
)
cutoff()
(in
ConstraintScoreCutoffFilter
)
clear_info()
(in
MovePoseToMembraneCenterMover
)
constrain_coords()
(in
RelaxProtocolBase
)
cutoff()
(in
PDDFScoreFilter
)
clear_info()
(in
RigidBodyDeterministicSpinMover
)
constrain_ligand_torsions()
(in
rosetta.protocols.ligand_docking._protocols_ligand_docking_
)
cutoff()
(in
SAXSScoreFilter
)
clear_info()
(in
RigidBodyDofPerturbMover
)
constrain_pose_res_to_invrots()
(in
rosetta.protocols.toolbox.match_enzdes_util._protocols_toolbox_match_enzdes_util_
)
cutoff()
(in
ScoreCutoffFilter
)
clear_info()
(in
RigidBodyDofRandomTransMover
)
constrain_relax_segments()
(in
RelaxProtocolBase
)
cutoff()
(in
FragmentCost
)
clear_info()
(in
RigidBodyDofRandomizeMover
)
constrain_relax_to_native_coords()
(in
RelaxProtocolBase
)
cutoff_distance()
(in
RestrictToLoopsAndNeighbors
)
clear_info()
(in
RigidBodyDofSeqPerturbMover
)
constrain_relax_to_start_coords()
(in
RelaxProtocolBase
)
cutoff_lower()
(in
FadeFunc
)
clear_info()
(in
RigidBodyDofSeqRandomizeMover
)
constrain_residue()
(in
rosetta.protocols.mpi_refinement._protocols_mpi_refinement_
)
cutoff_upper()
(in
FadeFunc
)
clear_info()
(in
RigidBodyDofSeqTransMover
)
constrain_to_antigen_chains()
(in
ParatopeSiteConstraintMover
)
cutpoint()
(in
FoldTree
)
clear_info()
(in
RigidBodyDofTransMover
)
constrain_to_epitope_residues()
(in
ParatopeEpitopeSiteConstraintMover
)
cutpoint_by_jump()
(in
FoldTree
)
clear_info()
(in
RigidBodyMotionMover
)
constrain_to_paratope_cdrs()
(in
ParatopeEpitopeSiteConstraintMover
)
cutpoint_closed_list()
(in
StepWiseBasicWorkingParameters
)
clear_info()
(in
RigidBodyMover
)
constrain_to_paratope_cdrs()
(in
ParatopeSiteConstraintMover
)
CUTPOINT_LOWER
(in
rosetta
)
clear_info()
(in
RigidBodyPerturbMover
)
constrain_to_paratope_residues()
(in
ParatopeEpitopeSiteConstraintMover
)
CUTPOINT_LOWER
(in
rosetta.core.chemical
)
clear_info()
(in
RigidBodyPerturbNoCenterMover
)
constrain_to_paratope_residues()
(in
ParatopeSiteConstraintMover
)
CUTPOINT_LOWER
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
RigidBodyPerturbRandomJumpMover
)
constrained_optimization_weight_func
(in
OptEPositionDataType
)
CUTPOINT_LOWER
(in
VariantType
)
clear_info()
(in
RigidBodyRandomizeMover
)
constrained_optimization_weight_func
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
cutpoint_map()
(in
FoldTree
)
clear_info()
(in
RigidBodySpinMover
)
constrained_optimization_weight_func
(in
rosetta.protocols.optimize_weights
)
CUTPOINT_OPEN
(in
rosetta.core.pose.full_model_info
)
clear_info()
(in
RigidBodyTransMover
)
Constraint
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
CUTPOINT_OPEN
(in
rosetta.core.pose.full_model_info._core_pose_full_model_info_
)
clear_info()
(in
RollMover
)
Constraint
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CUTPOINT_OPEN
(in
FullModelParameterType
)
clear_info()
(in
RotateJumpAxisMover
)
Constraint
(in
rosetta.protocols.md._protocols_md_
)
cutpoint_open_in_full_model()
(in
FullModelInfo
)
clear_info()
(in
UniformRigidBodyCM
)
constraint_file()
(in
ConstraintSetMover
)
cutpoint_open_list()
(in
StepWiseBasicWorkingParameters
)
clear_info()
(in
UniformRigidBodyMover
)
CONSTRAINT_SCORE
(in
rosetta.basic
)
cutpoint_probabilities()
(in
rosetta.protocols.medal._protocols_medal_
)
clear_info()
(in
UniformSphereTransMover
)
CONSTRAINT_SCORE
(in
rosetta.basic._basic_
)
cutpoint_res()
(in
LoopFromFileData
)
clear_info()
(in
WholeBodyRotationMover
)
CONSTRAINT_SCORE
(in
ProfTag
)
cutpoint_separation()
(in
rosetta.protocols.antibody._protocols_antibody_
)
clear_info()
(in
WholeBodyTranslationMover
)
constraint_set()
(in
Pose
)
cutpoint_separation()
(in
CDRH3Modeler
)
clear_info()
(in
AdditionalOutputWrapper
)
constraint_set()
(in
ConstraintSetMover
)
CUTPOINT_UPPER
(in
rosetta
)
clear_info()
(in
MultipleOutputWrapper
)
CONSTRAINT_SET_COPY
(in
rosetta.basic
)
CUTPOINT_UPPER
(in
rosetta.core.chemical
)
clear_info()
(in
MultiplePoseMover
)
CONSTRAINT_SET_COPY
(in
rosetta.basic._basic_
)
CUTPOINT_UPPER
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
ParsedProtocol
)
CONSTRAINT_SET_COPY
(in
ProfTag
)
CUTPOINT_UPPER
(in
VariantType
)
clear_info()
(in
SavePoseMover
)
constraint_set_slice()
(in
rosetta.protocols.stepwise.modeler._protocols_stepwise_modeler_
)
cutpoints()
(in
FoldTree
)
clear_info()
(in
RotamerRecoveryMover
)
ConstraintAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
cutpoints_separation()
(in
rosetta.protocols.antibody._protocols_antibody_
)
clear_info()
(in
CAcstGenerator
)
ConstraintAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
cutpoints_separation()
(in
CDRH3Modeler
)
clear_info()
(in
CloseFold
)
ConstraintAP
(in
rosetta.protocols.md._protocols_md_
)
cutpos_list()
(in
CoarseRNA_LoopCloser
)
clear_info()
(in
CoordinateCst
)
ConstraintCAP
(in
rosetta.basic.database.schema_generator._basic_database_schema_generator_
)
cuts()
(in
AutoCutData
)
clear_info()
(in
DefineMovableLoops
)
ConstraintCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
cuts()
(in
JumpSample
)
clear_info()
(in
GrowPeptides
)
ConstraintCAP
(in
rosetta.protocols.md._protocols_md_
)
cycle()
(in
FoldTreeSketch
)
clear_info()
(in
SeedFoldTree
)
ConstraintCreator
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CycleMover
(in
rosetta.protocols.moves._protocols_moves_
)
clear_info()
(in
SeedSetupMover
)
ConstraintCreatorAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CycleMoverAP
(in
rosetta.protocols.moves._protocols_moves_
)
clear_info()
(in
SegmentHybridizer
)
ConstraintCreatorCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CycleMoverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
clear_info()
(in
SwapSegment
)
ConstraintEdge
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
cycles()
(in
IteratedConvergenceMover
)
clear_info()
(in
EvaluatedTrialMover
)
ConstraintEdgeAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
cycles()
(in
StepWiseMonteCarloOptions
)
clear_info()
(in
AddCavitiesMover
)
ConstraintEdgeCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYCLIC
(in
rosetta
)
clear_info()
(in
AddChainMover
)
ConstraintedOptimizationWeightFunc
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
CYCLIC
(in
rosetta.core.chemical
)
clear_info()
(in
AddConstraintsToCurrentConformationMover
)
ConstraintedOptimizationWeightFuncAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
CYCLIC
(in
rosetta.core.chemical._core_chemical_
)
clear_info()
(in
AddJobPairData
)
ConstraintedOptimizationWeightFuncCAP
(in
rosetta.protocols.optimize_weights._protocols_optimize_weights_
)
CYCLIC
(in
ResidueProperty
)
clear_info()
(in
AlignChainMover
)
ConstraintEvaluator
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
cyclic_oxygen()
(in
CarbohydrateInfo
)
clear_info()
(in
BBConRotMover
)
ConstraintEvaluatorAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
cyclic_oxygen_index()
(in
CarbohydrateInfo
)
clear_info()
(in
BBG8T3AMover
)
ConstraintEvaluatorCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
cyclic_oxygen_name()
(in
CarbohydrateInfo
)
clear_info()
(in
BBGaussianMover
)
ConstraintEvaluatorCreator
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
cyclic_peptide
(in
rosetta.protocols
)
clear_info()
(in
BackboneMover
)
ConstraintEvaluatorCreatorAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
CyclicMover
(in
rosetta.protocols.moves._protocols_moves_
)
clear_info()
(in
BoltzmannRotamerMover
)
ConstraintEvaluatorCreatorCAP
(in
rosetta.protocols.constraints_additional._protocols_constraints_additional_
)
CyclicMoverAP
(in
rosetta.protocols.moves._protocols_moves_
)
clear_info()
(in
ChainSplitMover
)
ConstraintFactory
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CyclicMoverCAP
(in
rosetta.protocols.moves._protocols_moves_
)
clear_info()
(in
ChangeAndResetFoldTreeMover
)
ConstraintFactoryAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CyclizationMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
ClearConstraintsMover
)
ConstraintFactoryCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CyclizationMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
CombinePoseMover
)
ConstraintFragmentSampler
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
CyclizationMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
clear_info()
(in
ConsensusDesignMover
)
ConstraintFragmentSamplerAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
cyclize_pose()
(in
rosetta.protocols.forge.methods._protocols_forge_methods_
)
clear_info()
(in
ConstrainToIdealMover
)
ConstraintFragmentSamplerCAP
(in
rosetta.protocols.abinitio._protocols_abinitio_
)
CYS_C_ALPHA
(in
rosetta.core.scoring.disulfides
)
clear_info()
(in
ConstraintSetMover
)
ConstraintGraph
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_C_ALPHA
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clear_info()
(in
ContingentAcceptMover
)
ConstraintGraphAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_C_ALPHA
(in
DisulfideDerivativeAtom
)
clear_info()
(in
CopyDofMover
)
ConstraintGraphCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_C_BETA
(in
rosetta.core.scoring.disulfides
)
clear_info()
(in
CoupledMover
)
ConstraintIO
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_C_BETA
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clear_info()
(in
CutChainMover
)
ConstraintIOAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_C_BETA
(in
DisulfideDerivativeAtom
)
clear_info()
(in
CyclizationMover
)
ConstraintIOCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_CEN
(in
rosetta.core.scoring.disulfides
)
clear_info()
(in
DME_FilterMover
)
ConstraintNode
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_CEN
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clear_info()
(in
DeleteChainsMover
)
ConstraintNodeAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_CEN
(in
DisulfideDerivativeAtom
)
clear_info()
(in
DesignRepackMover
)
ConstraintNodeCAP
(in
rosetta.core.scoring.constraints._core_scoring_constraints_
)
CYS_S_GAMMA
(in
rosetta.core.scoring.disulfides
)
clear_info()
(in
DisulfideInsertionMover
)
ConstrainToIdealMover
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
CYS_S_GAMMA
(in
rosetta.core.scoring.disulfides._core_scoring_disulfides_
)
clear_info()
(in
DumpPdb
)
ConstrainToIdealMoverAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
CYS_S_GAMMA
(in
DisulfideDerivativeAtom
)
clear_info()
(in
EnergyCutRotamerTrialsMinMover
)
ConstrainToIdealMoverCAP
(in
rosetta.protocols.simple_moves._protocols_simple_moves_
)
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