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Rosetta
3.8
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#include <Mover.hh>
Inherits ReferenceCount, and enable_shared_from_this< Mover >.
Inherited by protocols::aa_composition::AddCompositionConstraintMover, protocols::aa_composition::AddHelixSequenceConstraintsMover, protocols::aa_composition::ClearCompositionConstraintsMover, protocols::abinitio::AbrelaxMover, protocols::abinitio::abscript::AbscriptStageMover, protocols::abinitio::DomainAssembly, protocols::abinitio::FragmentSampler, protocols::abinitio::Protocol, protocols::abinitio::ResolutionSwitcher, protocols::analysis::InterfaceAnalyzerMover, protocols::analysis::LoopAnalyzerMover, protocols::analysis::PackStatMover, protocols::anchored_design::AnchoredDesignMover, protocols::anchored_design::AnchoredPerturbMover, protocols::anchored_design::AnchoredRefineMover, protocols::antibody::AntibodyCDRGrafter, protocols::antibody::AntibodyModelerProtocol, protocols::antibody::AntibodyNumberingConverterMover, protocols::antibody::CDRsMinPackMin, protocols::antibody::CloseOneCDRLoop, protocols::antibody::constraints::CDRDihedralConstraintMover, protocols::antibody::constraints::ParatopeEpitopeSiteConstraintMover, protocols::antibody::constraints::ParatopeSiteConstraintMover, protocols::antibody::design::AntibodyDesignMover, protocols::antibody::design::AntibodyDesignProtocol, protocols::antibody::design::MutateFrameworkForCluster, protocols::antibody::GraftCDRLoopsProtocol, protocols::antibody::GraftedStemOptimizer, protocols::antibody::GraftOneCDRLoop, protocols::antibody::H3CterInsert, protocols::antibody::H3PerturbCCD, protocols::antibody::H3RefineCCD, protocols::antibody::LHRepulsiveRamp, protocols::antibody::LHRepulsiveRampLegacy, protocols::antibody::LHSnugFitLegacy, protocols::antibody::ModelCDRH3, protocols::antibody::RefineBetaBarrel, protocols::antibody::RefineOneCDRLoop, protocols::antibody::RefineOneCDRLoopCentroid, protocols::antibody::snugdock::SnugDockProtocol, protocols::antibody_legacy::AntibodyModeler, protocols::antibody_legacy::CDRH3Modeler, protocols::antibody_legacy::CloseOneMover, protocols::antibody_legacy::GraftMover, protocols::antibody_legacy::GraftOneMover, protocols::antibody_legacy::LoopRlxMover, protocols::backbone_moves::local_backbone_mover::LocalBackboneMover, protocols::backrub::BackrubProtocol, protocols::canonical_sampling::CanonicalSamplingMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::canonical_sampling::ThermodynamicMover, protocols::canonical_sampling::ThermodynamicObserver, protocols::carbohydrates::GlycanRelaxMover, protocols::carbohydrates::LinkageConformerMover, protocols::carbohydrates::SimpleGlycosylateMover, protocols::cluster::GatherPosesMover, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::comparative_modeling::ExtraThreadingMover, protocols::comparative_modeling::LoopRelaxMover, protocols::comparative_modeling::LoopRelaxThreadingMover, protocols::comparative_modeling::MultiThreadingMover, protocols::comparative_modeling::PartialThreadingMover, protocols::comparative_modeling::RecoverSideChainsMover, protocols::comparative_modeling::StealLigandMover, protocols::comparative_modeling::StealSideChainsMover, protocols::comparative_modeling::ThreadingMover, protocols::constraint_generator::AddConstraints, protocols::constraint_generator::RemoveConstraints, protocols::contact_map::ContactMap, protocols::coupled_moves::CoupledMovesProtocol, protocols::cryst::DockLatticeMover, protocols::cryst::FitBfactorsMover, protocols::cryst::LoadDensityMapMover, protocols::cryst::MakeLatticeMover, protocols::cryst::MakeLayerMover, protocols::cryst::RecomputeDensityMapMover, protocols::cryst::ReportGradientsMover, protocols::cryst::SetCrystWeightMover, protocols::cryst::SetRefinementOptionsMover, protocols::cryst::TagPoseWithRefinementStatsMover, protocols::cryst::UpdateCrystInfo, protocols::cryst::UpdateSolventMover, protocols::cyclic_peptide::CreateAngleConstraint, protocols::cyclic_peptide::CreateDistanceConstraint, protocols::cyclic_peptide::CreateTorsionConstraint, protocols::cyclic_peptide::DeclareBond, protocols::cyclic_peptide::FlipChiralityMover, protocols::cyclic_peptide::PeptideCyclizeMover, protocols::cyclic_peptide::PeptideStubMover, protocols::cyclic_peptide::SymmetricCycpepAlign, protocols::cyclic_peptide::ThreefoldLinkerMover, protocols::cyclic_peptide::TryDisulfPermutations, protocols::ddg::ddGMover, protocols::denovo_design::movers::AddSegmentDataMover, protocols::denovo_design::movers::AlignResiduesMover, protocols::denovo_design::movers::BridgeChainsMover, protocols::denovo_design::movers::BuildDeNovoBackboneMover, protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover, protocols::denovo_design::movers::ExtendChainMover, protocols::denovo_design::movers::FoldTreeFromFoldGraphMover, protocols::denovo_design::movers::MakeAsymmetricStructureDataMover, protocols::denovo_design::movers::RotateSegmentMover, protocols::denovo_design::movers::SealFoldTreeMover, protocols::denovo_design::movers::SetPoseSecstructFromStructureDataMover, protocols::denovo_design::movers::SetResidueAliasMover, protocols::design_opt::GreedyOptMutationMover, protocols::dna::SeparateDnaFromNonDna, protocols::docking::ConformerSwitchMover, protocols::docking::DockingHighRes, protocols::docking::DockingInitialPerturbation, protocols::docking::DockingLowRes, protocols::docking::DockingProtocol, protocols::docking::DockingSlideIntoContact, protocols::docking::DockMCMCycle, protocols::docking::DockSetupMover, protocols::docking::EllipsoidalRandomizationMover, protocols::docking::FaDockingSlideIntoContact, protocols::docking::membrane::MPDockingMover, protocols::docking::membrane::MPDockingSetupMover, protocols::docking::membrane::MPFindInterfaceMover, protocols::docking::membrane::QuickRelaxPartnersSeparately, protocols::docking::SlideIntoContact, protocols::docking::TemperedDocking, protocols::domain_assembly::AddAssemblyConstraints, protocols::domain_assembly::AssembleLinkerMover, protocols::domain_assembly::CombineChainsMover, protocols::domain_assembly::PostDockAssemblyScorer, protocols::electron_density::BfactorFittingMover, protocols::electron_density::DockIntoDensityMover, protocols::electron_density::ReportFSC, protocols::electron_density::ScaleMapIntensities, protocols::electron_density::SetupForDensityScoringMover, protocols::electron_density::VoxelSpacingRefinementMover, protocols::environment::ClientMover, protocols::environment::EnvMover, protocols::enzdes::AddOrRemoveMatchCsts, protocols::enzdes::EnzRepackMinimize, protocols::enzdes::ModifyStoredRBConfs, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::enzdes::RepackLigandSiteWithoutLigandMover, protocols::enzdes::UpdateEnzdesHeaderMover, protocols::enzymatic_movers::EnzymaticMover, protocols::farna::ErraserMinimizerMover, protocols::farna::FARNA_Optimizer, protocols::farna::movers::RNA_FragmentMover, protocols::farna::movers::RNA_LoopCloser, protocols::farna::movers::RNA_Minimizer, protocols::farna::movers::RNA_Relaxer, protocols::farna::MultipleDomainMover, protocols::farna::RNA_DeNovoProtocol, protocols::farna::RNA_FragmentMonteCarlo, protocols::farna::RNAIdealizeMover, protocols::farna::RNAThreadAndMinimizeMover, protocols::features::InterfaceDdGMover, protocols::features::ReportToDB, protocols::fibril::SetupForFibrilMover, protocols::fldsgn::BluePrintBDR, protocols::fldsgn::CircularPermutation, protocols::fldsgn::MatchResiduesMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::flexpack::FlexPacker, protocols::flexpep_docking::FlexPepDockingAbInitio, protocols::flexpep_docking::FlexPepDockingLowRes, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::floppy_tail::FloppyTailMover, protocols::flxbb::FlxbbDesign, protocols::flxbb::InterlockAroma, protocols::forge::components::BDR, protocols::forge::components::VarLengthBuild, protocols::forge::constraints::RemoveRemodelCsts, protocols::forge::remodel::RemodelAccumulator, protocols::forge::remodel::RemodelConstraintGenerator, protocols::forge::remodel::RemodelDesignMover, protocols::forge::remodel::RemodelGlobalFrame, protocols::forge::remodel::RemodelLigandHandler, protocols::forge::remodel::RemodelLoopMover, protocols::forge::remodel::RemodelMover, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::frags::TorsionFragmentMover, protocols::generalized_kinematic_closure::GeneralizedKIC, protocols::grafting::GraftMoverBase, protocols::grafting::simple_movers::DeleteRegionMover, protocols::grafting::simple_movers::InsertPoseIntoPoseMover, protocols::grafting::simple_movers::KeepRegionMover, protocols::grafting::simple_movers::ReplaceRegionMover, protocols::hbnet::HBNet, protocols::helical_bundle::BackboneGridSampler, protocols::helical_bundle::BundleGridSampler, protocols::helical_bundle::FitSimpleHelix, protocols::helical_bundle::MakeBundle, protocols::helical_bundle::MakeBundleHelix, protocols::helical_bundle::PerturbBundle, protocols::helical_bundle::PerturbBundleHelix, protocols::hotspot_hashing::movers::PlaceProbeMover [virtual]
, protocols::hybridization::BackboneTorsionPerturbation, protocols::hybridization::BackboneTorsionSampler, protocols::hybridization::CartesianHybridize, protocols::hybridization::CartesianSampler, protocols::hybridization::ChunkTrialMover, protocols::hybridization::DomainAssembly, protocols::hybridization::FoldTreeHybridize, protocols::hybridization::HybridizeProtocol, protocols::hybridization::InsertChunkMover, protocols::hybridization::MRMover, protocols::hybridization::WeightedFragmentSmoothTrialMover, protocols::hybridization::WeightedFragmentTrialMover, protocols::idealize::IdealizeMover, protocols::indel::IndelOptimizationMover, protocols::ligand_docking::AddHydrogen, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::CompoundTranslate, protocols::ligand_docking::ComputeLigandRDF, protocols::ligand_docking::FinalMinimizer, protocols::ligand_docking::GrowLigand, protocols::ligand_docking::HighResDocker, protocols::ligand_docking::HighResEnsemble, protocols::ligand_docking::InterfaceScoreCalculator, protocols::ligand_docking::LigandBaseProtocol [virtual]
, protocols::ligand_docking::LigandDesign, protocols::ligand_docking::MinimizeBackbone, protocols::ligand_docking::MinimizeLigand, protocols::ligand_docking::RandomConformerMover, protocols::ligand_docking::RandomConformers, protocols::ligand_docking::RigidSearchMover, protocols::ligand_docking::Rotate, protocols::ligand_docking::Rotates, protocols::ligand_docking::SlideTogether, protocols::ligand_docking::StartFrom, protocols::ligand_docking::TetherLigand, protocols::ligand_docking::Transform, protocols::ligand_docking::TransformEnsemble, protocols::ligand_docking::Translate, protocols::ligand_docking::UnconstrainedTorsionsMover, protocols::ligand_docking::WriteLigandMolFile, protocols::loop_build::LoopBuildMover, protocols::loop_build::LoopmodelWrapper, protocols::loop_modeling::LoopMover, protocols::loophash::FastGapMover, protocols::loophash::LoopHashDiversifier, protocols::loophash::LoopHashLibrary, protocols::loophash::LoopHashMoverWrapper, protocols::loophash::LoopHashRelaxProtocol, protocols::loophash::Mover_LoopHashRefine, protocols::LoopRebuild, protocols::LoopRefine, protocols::loops::FoldTreeFromLoops, protocols::loops::loop_closure::ccd::CCDLoopClosureMover, protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure, protocols::loops::loop_closure::kinematic_closure::KinematicMover, protocols::loops::loop_closure::kinematic_closure::KinematicWrapper, protocols::loops::loop_mover::LoopMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycle, protocols::magnesium::MgHydrater, protocols::magnesium::MgMonteCarlo, protocols::magnesium::MgOrbitalFrameFinder, protocols::magnesium::MgScanner, protocols::magnesium::MgWaterHydrogenPacker, protocols::make_rot_lib::MakeRotLibMover, protocols::matdes::ExtractSubposeMover, protocols::matdes::MatDesGreedyOptMutationMover, protocols::matdes::SchemePlaceMotifsMover, protocols::matdes::SymDofMover, protocols::md::MDBase, protocols::medal::MedalExchangeMover, protocols::medal::MedalMover, protocols::membrane::AddMembraneMover, protocols::membrane::AddMPLigandMover, protocols::membrane::benchmark::MakeCanonicalHelix, protocols::membrane::benchmark::SampleTiltAngles, protocols::membrane::FlipMover, protocols::membrane::HelixFromSequence, protocols::membrane::MembranePositionFromTopologyMover, protocols::membrane::MPLipidAccessibility, protocols::membrane::MPMutateRelaxMover, protocols::membrane::MPQuickRelaxMover, protocols::membrane::OptimizeMembranePositionMover, protocols::membrane::OptimizeProteinEmbeddingMover, protocols::membrane::RandomPositionRotationMover, protocols::membrane::RandomPositionTranslationMover, protocols::membrane::RotationMover, protocols::membrane::SetMembraneCenterMover, protocols::membrane::SetMembraneNormalMover, protocols::membrane::SetMembranePositionMover, protocols::membrane::SpinAroundPartnerMover, protocols::membrane::TiltMover, protocols::membrane::TransformIntoMembraneMover, protocols::membrane::TranslationMover, protocols::membrane::TranslationRotationMover, protocols::membrane::visualize::VisualizeEmbeddingMover, protocols::membrane::visualize::VisualizeMembraneMover, protocols::metal_interface::ZincHeterodimerMover, protocols::motif_grafting::movers::MotifGraftMover, protocols::motifs::MotifDnaPacker, protocols::moves::ChangeFoldTreeMover, protocols::moves::CompositionMover, protocols::moves::CyclicMover, protocols::moves::DsspMover, protocols::moves::FilterMover, protocols::moves::FilterReportAsPoseExtraScoresMover, protocols::moves::FilterReporterMover, protocols::moves::IfMover, protocols::moves::IteratedConvergenceMover, protocols::moves::JumpOutMover, protocols::moves::MCShowMover, protocols::moves::MonteCarloUtil, protocols::moves::MoveMapMover, protocols::moves::MoverApplyingMover, protocols::moves::MoverContainer, protocols::moves::MoverForPoseList, protocols::moves::PDBDumpMover, protocols::moves::ProfilerMover, protocols::moves::PyMOLMover, protocols::moves::RampingMover, protocols::moves::RepeatMover, protocols::moves::StructureRestrictor, protocols::moves::TrialMover, protocols::moves::VectorPoseMover, protocols::moves::WhileMover, protocols::mpi_refinement::StructAvrgMover, protocols::ncbb::NcbbDockDesignProtocol, protocols::ncbb::oop::OopCreatorMover, protocols::ncbb::oop::OopDockDesignProtocol, protocols::ncbb::SecStructFinder, protocols::ncbb::SecStructMinimizeMover, protocols::noesy_assign::DistanceScoreMover, protocols::nonlocal::BiasedFragmentMover, protocols::nonlocal::HelixRotate, protocols::nonlocal::SheetTranslate, protocols::nonlocal::SingleFragmentMover, protocols::normalmode::NormalModeMinimizer, protocols::normalmode::NormalModeRelaxMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::pose_length_moves::AnalyzeLoopModeling, protocols::pose_length_moves::ConnectChainsMover, protocols::pose_length_moves::FixAllLoopsMover, protocols::pose_length_moves::InsertResMover, protocols::pose_length_moves::NearNativeLoopCloser, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::DockWithHotspotMover, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::LoopLengthChange, protocols::protein_interface_design::movers::LoopOver, protocols::protein_interface_design::movers::MapHotspot, protocols::protein_interface_design::movers::NucleotideMutation, protocols::protein_interface_design::movers::PatchdockTransform, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::RandomMutation, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::protein_interface_design::movers::SpinMover, protocols::protein_interface_design::movers::SubroutineMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::protein_interface_design::movers::TryRotamers, protocols::protein_interface_design::movers::VLB, protocols::qsar::qsarMover, protocols::qsar::RenderGridsToKinemage, protocols::qsar::scoring_grid::GridInitMover, protocols::rbsegment_relax::AutoRBMover, protocols::rbsegment_relax::CCDMoveWrapper, protocols::rbsegment_relax::FragInsertAndAlignMover, protocols::rbsegment_relax::IdealizeHelicesMover, protocols::rbsegment_relax::MakeStarTopologyMover, protocols::rbsegment_relax::OptimizeThreadingMover, protocols::rbsegment_relax::RBSegmentMover, protocols::rbsegment_relax::RBSegmentRelax, protocols::RBSegmentRelaxImpl, protocols::recces::RECCES_Mover, protocols::recces::scratch::ThermalMinimizer, protocols::recces::scratch::ThermalSamplingMover, protocols::relax::AtomCoordinateCstMover, protocols::relax::LocalRelax, protocols::relax::membrane::MPFastRelaxMover, protocols::relax::membrane::MPRangeRelaxMover, protocols::relax::RangeRelaxMover, protocols::relax::RelaxProtocolBase, protocols::residue_selectors::StoreResidueSubsetMover, protocols::rigid::MembraneCenterPerturbationMover, protocols::rigid::MembraneNormalPerturbationMover, protocols::rigid::MovePoseToMembraneCenterMover, protocols::rigid::RigidBodyMotionMover, protocols::rigid::RollMover, protocols::rigid::RotateJumpAxisMover, protocols::rigid::WholeBodyRotationMover, protocols::rigid::WholeBodyTranslationMover, protocols::rosetta_scripts::AdditionalOutputWrapper, protocols::rosetta_scripts::MultipleOutputWrapper, protocols::rosetta_scripts::MultiplePoseMover, protocols::rosetta_scripts::ParsedProtocol, protocols::rosetta_scripts::SavePoseMover, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::RotamerDump::RotamerDumpMover, protocols::seeded_abinitio::CAcstGenerator, protocols::seeded_abinitio::CloseFold, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::seeded_abinitio::GrowPeptides, protocols::seeded_abinitio::SeedFoldTree, protocols::seeded_abinitio::SeedSetupMover, protocols::seeded_abinitio::SegmentHybridizer, protocols::seeded_abinitio::SwapSegment, protocols::sewing::AddStartnodeFragments, protocols::sewing::AssemblyConstraintsMover, protocols::sewing::AssemblyMover, protocols::simple_moves::a3b_hbs::A3BHbsPatcher, protocols::simple_moves::AddCavitiesMover, protocols::simple_moves::AddChainMover, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::simple_moves::AddJobPairData, protocols::simple_moves::AlignChainMover, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockMoveRbJumpMover, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover, protocols::simple_moves::BBDihedralSamplerMover, protocols::simple_moves::bin_transitions::InitializeByBins, protocols::simple_moves::bin_transitions::PerturbByBins, protocols::simple_moves::BoltzmannRotamerMover, protocols::simple_moves::ChainSplitMover, protocols::simple_moves::chiral::ChiralMover, protocols::simple_moves::ClearConstraintsMover, protocols::simple_moves::CombinePoseMover, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::ConstrainToIdealMover, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::ContingentAcceptMover, protocols::simple_moves::ConvertRealToVirtualMover, protocols::simple_moves::ConvertVirtualToRealMover, protocols::simple_moves::CopyDofMover, protocols::simple_moves::CopyRotamerMover, protocols::simple_moves::CoupledMover, protocols::simple_moves::CstInfoMover, protocols::simple_moves::CutChainMover, protocols::simple_moves::CyclizationMover, protocols::simple_moves::ddG, protocols::simple_moves::DeleteChainMover, protocols::simple_moves::DeleteChainsMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::DisulfideInsertionMover, protocols::simple_moves::DME_FilterMover, protocols::simple_moves::DumpPdb, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::FavorSymmetricSequence, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::GreenPacker, protocols::simple_moves::hbs::HbsPatcher, protocols::simple_moves::LoadPDBMover, protocols::simple_moves::LoadUnboundRotMover, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::MembraneTopology, protocols::simple_moves::MergePDBMover, protocols::simple_moves::MinPackMover, protocols::simple_moves::MissingDensityToJumpMover, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::MonteCarloReset, protocols::simple_moves::MonteCarloTest, protocols::simple_moves::MutateResidue, protocols::simple_moves::oop::OopMover, protocols::simple_moves::oop::OopPatcher, protocols::simple_moves::oop::OopRandomPuckMover, protocols::simple_moves::oop::OopRandomSmallMover, protocols::simple_moves::PackRotamersMover, protocols::simple_moves::PDBReloadMover, protocols::simple_moves::PeptideStapleMover, protocols::simple_moves::PeriodicBoxMover, protocols::simple_moves::PertMinMover, protocols::simple_moves::ProlineFixMover, protocols::simple_moves::PSSM2BfactorMover, protocols::simple_moves::RandomOmegaFlipMover, protocols::simple_moves::RandomTorsionMover, protocols::simple_moves::rational_mc::RationalMonteCarlo, protocols::simple_moves::RepackSidechainsMover, protocols::simple_moves::RepeatPropagationMover, protocols::simple_moves::ReportEffectivePKA, protocols::simple_moves::RepulsiveOnlyMover, protocols::simple_moves::ResetBaselineMover, protocols::simple_moves::ResetFoldTree, protocols::simple_moves::ResidueTypeConstraintMover, protocols::simple_moves::ReturnSidechainMover, protocols::simple_moves::RingConformationMover, protocols::simple_moves::RotamerizeMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::simple_moves::RotamerTrialsMover, protocols::simple_moves::SaneMinMover, protocols::simple_moves::ScoreMover, protocols::simple_moves::SequenceProfileMover, protocols::simple_moves::SetTorsion, protocols::simple_moves::ShakeStructureMover, protocols::simple_moves::ShortBackrubMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::simple_moves::SimpleThreadingMover, protocols::simple_moves::StorePoseSnapshot, protocols::simple_moves::StructProfileMover, protocols::simple_moves::SuperimposeMover, protocols::simple_moves::SwitchChainOrderMover, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::simple_moves::symmetry::DetectSymmetry, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::simple_moves::symmetry::FaSymDockingSlideTogether, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::simple_moves::symmetry::SetupNCSMover, protocols::simple_moves::symmetry::SymDockingInitialPerturbation, protocols::simple_moves::symmetry::SymDockingSlideIntoContact, protocols::simple_moves::symmetry::SymmetricRMSMover, protocols::simple_moves::TaskAwareMinMover, protocols::simple_moves::TorsionDOFMover, protocols::simple_moves::TorsionSetMover, protocols::simple_moves::triazolamer::TriazolamerMover, protocols::simple_moves::triazolamer::TriazolamerRandomSmallMover, protocols::simple_moves::Tumble, protocols::simple_moves::UniformRotationMover, protocols::simple_moves::UniformTranslationMover, protocols::simple_moves::VirtualRootMover, protocols::star::StarAbinitio, protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer, protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup, protocols::stepwise::legacy::modeler::rna::RNA_AnalyticLoopCloser, protocols::stepwise::legacy::modeler::rna::StepWiseRNA_PoseSetup, protocols::stepwise::modeler::packer::SideChainCopier, protocols::stepwise::modeler::packer::StepWisePacker, protocols::stepwise::modeler::polar_hydrogens::PolarHydrogenPacker, protocols::stepwise::modeler::precomputed::PrecomputedLibraryMover, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_Closer, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_MultiPoseCloser, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinKIC_LoopBridger, protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler, protocols::stepwise::modeler::rna::bulge::BulgeApplyMover, protocols::stepwise::modeler::rna::bulge::BulgeUnApplyMover, protocols::stepwise::modeler::rna::checker::RNA_ChainClosureChecker, protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler, protocols::stepwise::modeler::rna::o2prime::O2PrimePacker, protocols::stepwise::modeler::rna::phosphate::MultiPhosphateSampler, protocols::stepwise::modeler::rna::phosphate::PhosphateMover, protocols::stepwise::modeler::rna::sugar::SugarInstantiateMover, protocols::stepwise::modeler::rna::sugar::SugarVirtualizeMover, protocols::stepwise::modeler::rna::sugar::VirtualSugarJustInTimeInstantiator, protocols::stepwise::modeler::rna::sugar::VirtualSugarSamplerFromStringList, protocols::stepwise::modeler::StepWiseMinimizer, protocols::stepwise::modeler::StepWiseModeler, protocols::stepwise::monte_carlo::mover::AddMover, protocols::stepwise::monte_carlo::mover::AddOrDeleteMover, protocols::stepwise::monte_carlo::mover::DeleteMover, protocols::stepwise::monte_carlo::mover::FromScratchMover, protocols::stepwise::monte_carlo::mover::ResampleMover, protocols::stepwise::monte_carlo::mover::StepWiseMasterMover, protocols::stepwise::monte_carlo::mover::VaryLoopLengthMover, protocols::stepwise::monte_carlo::rna::RNA_AddDeleteMonteCarlo, protocols::stepwise::monte_carlo::rna::RNA_O2PrimeMover, protocols::stepwise::monte_carlo::rna::RNA_TorsionMover, protocols::stepwise::monte_carlo::StepWiseMonteCarlo, protocols::stepwise::setup::StepWiseJobDistributor, protocols::struct_fragment::StructFragmentMover, protocols::surface_docking::CentroidRelaxMover, protocols::surface_docking::FullatomRelaxMover, protocols::surface_docking::SurfaceDockingProtocol, protocols::surface_docking::SurfaceOrientMover, protocols::symmetric_docking::membrane::MPSymDockMover, protocols::symmetric_docking::SymDockBaseProtocol, protocols::symmetric_docking::SymDockingHiRes, protocols::symmetric_docking::SymDockingLowRes, protocols::symmetric_docking::SymDockProtocol, protocols::symmetric_docking::SymFoldandDockMoveRbJumpMover, protocols::symmetric_docking::SymFoldandDockRbTrialMover, protocols::symmetric_docking::SymFoldandDockSlideTrialMover, protocols::symmetric_docking::SymSidechainMinMover, protocols::toolbox::match_enzdes_util::AlignPoseToInvrotTreeMover, protocols::toolbox::SamplerPlusPlus, protocols::toolbox::task_operations::StoreCombinedStoredTasksMover, protocols::toolbox::task_operations::StoreCompoundTaskMover, protocols::toolbox::task_operations::StoreTaskMover, protocols::ub_e2c::ubi_e2c_modeler, and protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover.
Public Types | |
typedef utility::tag::TagCOP | TagCOP |
typedef core::pose::Pose | Pose |
typedef core::pose::PoseCOP | PoseCOP |
typedef protocols::filters::Filters_map | Filters_map |
typedef std::list< std::string > | Strings |
Public Member Functions | |
Mover () | |
~Mover () override | |
virtual MoverOP | create () |
MoverCOP | get_self_ptr () const |
MoverOP | get_self_ptr () |
MoverCAP | get_self_weak_ptr () const |
MoverAP | get_self_weak_ptr () |
Mover (std::string type_name) | |
sets the type for a mover; name_ has been removed (2010/05/14) More... | |
Mover (Mover const &other) | |
Mover & | operator= (Mover const &other) |
assignment operator More... | |
virtual core::Real | last_proposal_density_ratio () |
virtual void | apply (Pose &)=0 |
std::string const & | type () const |
void | set_type (std::string const &setting) |
std::string | get_current_tag () const |
A tag is a unique identifier used to identify structures produced by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor. More... | |
virtual void | set_current_tag (std::string const &new_tag) |
virtual void | set_input_pose (PoseCOP pose) |
setter for poses contained for rms More... | |
virtual void | set_native_pose (PoseCOP pose) |
setter for native poses contained for rms -— we should get rid of this method? it is widely used, but a bit unsafe More... | |
PoseCOP | get_input_pose () const |
PoseCOP | get_native_pose () const |
virtual void | test_move (Pose &pose) |
: Unit test support function. Apply one move to a given pose. Allows extra test specific functions to be called before applying More... | |
void | type (const std::string &type_in) |
virtual MoverOP | clone () const |
Return a clone of the Mover object. More... | |
virtual void | parse_my_tag (TagCOP tag, basic::datacache::DataMap &data, Filters_map const &filters, Movers_map const &movers, Pose const &pose) |
Called by MoverFactory when constructing new Movers. Takes care of the specific mover's parsing. More... | |
virtual std::string | get_name () const =0 |
Each derived class must specify its name. The class name. More... | |
std::string | get_type () const |
MoverStatus | get_last_move_status () const |
end parser interface, start Job Distributor interface///////////// More... | |
void | reset_status () |
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s. More... | |
virtual core::pose::PoseOP | get_additional_output () |
Mechanism by which a mover may return multiple output poses from a single input pose. More... | |
virtual void | clear_info () |
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file. More... | |
virtual Strings & | info () |
non-const accessor More... | |
virtual Strings const & | info () const |
const accessor More... | |
virtual bool | reinitialize_for_each_job () const |
Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on each use. More... | |
virtual bool | reinitialize_for_new_input () const |
Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose). More... | |
virtual MoverOP | fresh_instance () const |
Generates a new Mover object freshly created with the default ctor. More... | |
void | set_current_job (protocols::jobdist::BasicJobCOP job) |
jobdist::BasicJobCOP | get_current_job () const |
virtual void | show (std::ostream &output=std::cout) const |
Outputs details about the Mover, including current settings. More... | |
Static Public Member Functions | |
static std::string | name () |
static void | register_options () |
Overload this static method if you access options within the mover. More... | |
Protected Member Functions | |
void | set_last_move_status (MoverStatus status) |
nonvirtual setter for MoverStatus last_status_. Protected means that only the mover itself will be able to change its own status. The job distributor (august 08 vintage) is aware of status set with this function and will do what the MoverStatus says. More... | |
Private Attributes | |
std::string | type_ |
std::string | current_tag_ |
PoseCOP | input_pose_ |
PoseCOP | native_pose_ |
MoverStatus | last_status_ |
used to track if movers fail their filters - jobdist::BasicJob Distributor queries for this value More... | |
Strings | info_ |
miscellaneous info: optional notes about mover results. Fed to Job by JobDistributor (jd2), allowing JobOutputters to optionally report this information in some way. More... | |
jobdist::BasicJobCOP | current_job_ |
this field can be NULL or it refers to the current JOB this mover is working on. More... | |
typedef std::list< std::string > protocols::moves::Mover::Strings |
typedef utility::tag::TagCOP protocols::moves::Mover::TagCOP |
protocols::moves::Mover::Mover | ( | ) |
|
overridedefault |
protocols::moves::Mover::Mover | ( | std::string | type_name | ) |
sets the type for a mover; name_ has been removed (2010/05/14)
protocols::moves::Mover::Mover | ( | Mover const & | other | ) |
|
pure virtual |
Implemented in protocols::rigid::RigidBodyDofSeqPerturbMover, protocols::rigid::RigidBodyDofPerturbMover, protocols::rigid::RigidBodyDofRandomTransMover, protocols::rigid::RigidBodyDofSeqTransMover, protocols::rigid::RigidBodyDofTransMover, protocols::abinitio::Stage1Sampler, protocols::rigid::RigidBodyDofSeqRandomizeMover, protocols::rigid::RigidBodyDofRandomizeMover, protocols::rigid::UniformSphereTransMover, protocols::frags::TorsionFragmentMover, protocols::rigid::RigidBodyTransMover, protocols::forge::components::VarLengthBuild, protocols::rigid::RigidBodyTiltMover, protocols::rbsegment_relax::StrandTwistingMover, protocols::rigid::RigidBodyDeterministicSpinMover, protocols::forge::remodel::RemodelLoopMover, protocols::rigid::RigidBodySpinMover, protocols::rbsegment_relax::GaussianRBSegmentMover, protocols::hbnet::HBNet, protocols::membrane::TranslationRotationMover, protocols::forge::remodel::RemodelMover, protocols::denovo_design::movers::SetPoseSecstructFromStructureDataMover, protocols::cluster::AssignToClustersMover, protocols::rigid::RigidBodyRandomizeMover, protocols::flxbb::FlxbbDesignPack, protocols::forge::components::BDR, protocols::moves::PyMOLMover, protocols::cryst::SetRefinementOptionsMover, protocols::enzdes::UpdateEnzdesHeaderMover, protocols::cryst::MakeLatticeMover, protocols::rbsegment_relax::SequenceShiftMover, protocols::anchored_design::AnchoredRefineMover, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::LoopRefine, protocols::cryst::TagPoseWithRefinementStatsMover, protocols::docking::SlideIntoContact, protocols::analysis::InterfaceAnalyzerMover, protocols::moves::CycleMover, protocols::membrane::RotationMover, protocols::cryst::UpdateSolventMover, protocols::enzdes::RepackLigandSiteWithoutLigandMover, protocols::fldsgn::BluePrintBDR, protocols::membrane::SetMembraneCenterMover, protocols::antibody_legacy::LoopRlxMover, protocols::simple_moves::GreenPacker, protocols::docking::FaDockingSlideIntoContact, protocols::electron_density::DockIntoDensityMover, protocols::rigid::RigidBodyPerturbRandomJumpMover, protocols::features::ReportToDB, protocols::rbsegment_relax::HelicalGaussianMover, protocols::abinitio::JumpingFoldConstraintsWrapper, protocols::enzdes::DiversifyStoredRBConfs, protocols::cryst::FitBfactorsMover, protocols::motif_grafting::movers::MotifGraftMover, protocols::anchored_design::AnchoredPerturbMover, protocols::canonical_sampling::MetricRecorder, protocols::moves::RandomMover, protocols::docking::DockingSlideIntoContact, protocols::simple_moves::EnergyCutRotamerTrialsMinMover, protocols::simple_moves::EnergyCutRotamerTrialsMover, protocols::rigid::RigidBodyPerturbMover, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::moves::RampingMover, protocols::antibody_legacy::CloseOneMover, protocols::enzdes::MinimizeStoredRBConfs, protocols::symmetric_docking::SymDockProtocol, protocols::canonical_sampling::TrajectoryRecorder, protocols::docking::DockingProtocol, protocols::abinitio::ClassicAbinitio, protocols::cryst::LoadDensityMapMover, protocols::membrane::SetMembraneNormalMover, protocols::moves::SequenceMover, protocols::simple_moves::ClassicFragmentMover, protocols::abinitio::MembraneAbinitio, protocols::hybridization::FoldTreeHybridize, protocols::moves::TrialMover, protocols::cryst::DockLatticeMover, protocols::enzdes::PredesignPerturbMover, protocols::enzdes::ApplyRandomStoredRBConf, protocols::cryst::MakeLayerMover, protocols::abinitio::FragmentSampler, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::relax::FastRelax, protocols::sewing::AssemblyConstraintsMover, protocols::flxbb::FlxbbDesign, protocols::simple_moves::GenericMonteCarloMover, protocols::fldsgn::CircularPermutation, protocols::membrane::RandomPositionTranslationMover, protocols::simple_moves::UniformTranslationMover, protocols::membrane::AddMembraneMover, protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover, protocols::antibody_legacy::GraftOneMover, protocols::docking::membrane::MPDockingMover, protocols::membrane::TranslationMover, protocols::cryst::RecomputeDensityMapMover, protocols::loops::loop_closure::kinematic_closure::KinematicMover, protocols::loop_modeling::LoopMover, protocols::membrane::TransformIntoMembraneMover, protocols::pose_length_moves::NearNativeLoopCloser, protocols::simple_moves::MinMover, protocols::enzdes::GenerateStoredRBConfs, protocols::hybridization::HybridizeProtocol, protocols::simple_moves::symmetry::FaSymDockingSlideTogether, protocols::antibody::design::AntibodyDesignProtocol, protocols::farna::RNAThreadAndMinimizeMover, protocols::abinitio::ConstraintFragmentSampler, protocols::membrane::FlipMover, protocols::comparative_modeling::ThreadingMover, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::loops::loop_closure::ccd::CCDLoopClosureMover, protocols::idealize::IdealizeMover, protocols::denovo_design::movers::FastDesign, protocols::docking::DockingHighRes, protocols::simple_moves::sidechain_moves::SidechainMoverBase, protocols::abinitio::FoldConstraints, protocols::protein_interface_design::movers::PlaceStubMover, protocols::antibody::design::AntibodyDesignMover, protocols::membrane::TiltMover, protocols::membrane::visualize::VisualizeMembraneMover, protocols::symmetric_docking::membrane::MPSymDockMover, protocols::ddg::ddGMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::membrane::SpinAroundPartnerMover, protocols::simple_moves::PackRotamersMover, protocols::membrane::MPQuickRelaxMover, protocols::relax::RangeRelaxMover, protocols::moves::MCShowMover, protocols::simple_moves::symmetry::SetupNCSMover, protocols::forge::remodel::RemodelDesignMover, protocols::grafting::AnchoredGraftMover, protocols::membrane::AddMPLigandMover, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::comparative_modeling::LoopRelaxMover, protocols::ligand_docking::HighResEnsemble, protocols::docking::TemperedDocking, protocols::abinitio::Protocol, protocols::backrub::BackrubSidechainMover, protocols::docking::DockingHighResLegacy, protocols::docking::InterfaceSidechainMinMover, protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure, protocols::ncbb::oop::OopCreatorMover, protocols::simple_moves::ChangeAndResetFoldTreeMover, protocols::simple_moves::EvolutionaryDynamicsMover, protocols::docking::membrane::MPDockingSetupMover, protocols::ligand_docking::LigandBaseProtocol, protocols::antibody_legacy::CDRH3Modeler, protocols::docking::membrane::MPFindInterfaceMover, protocols::relax::CentroidRelax, protocols::relax::membrane::MPFastRelaxMover, protocols::membrane::OptimizeMembranePositionMover, protocols::simple_moves::GenericSimulatedAnnealer, protocols::docking::DockMCMCycle, protocols::symmetric_docking::SymInterfaceSidechainMinMover, protocols::antibody::design::MutateFrameworkForCluster, protocols::nonlocal::SingleFragmentMover, protocols::relax::membrane::MPRangeRelaxMover, protocols::rigid::WholeBodyRotationMover, protocols::symmetric_docking::SymDockingHiRes, protocols::docking::membrane::QuickRelaxPartnersSeparately, protocols::helical_bundle::BundleGridSampler, protocols::simple_moves::symmetry::SymDockingSlideIntoContact, protocols::comparative_modeling::MultiThreadingMover, protocols::electron_density::BfactorFittingMover, protocols::grafting::CCDEndsGraftMover, protocols::simple_moves::PeriodicBoxMover, protocols::backrub::BackrubMover, protocols::forge::remodel::RemodelGlobalFrame, protocols::ligand_docking::LigandDockMain, protocols::membrane::MembranePositionFromTopologyMover, protocols::relax::ClassicRelax, protocols::rigid::RigidBodyMover, protocols::abinitio::KinematicAbinitio, protocols::docking::DockingLowRes, protocols::ligand_docking::Rotate, protocols::membrane::MPMutateRelaxMover, protocols::rbsegment_relax::CCDMoveWrapper, protocols::carbohydrates::LinkageConformerMover, protocols::cryst::SetCrystWeightMover, protocols::cryst::UpdateCrystInfo, protocols::docking::DockMCMProtocol, protocols::relax::LocalRelax, protocols::flxbb::InterlockAroma, protocols::moves::ProfilerMover, protocols::simple_moves::bin_transitions::InitializeByBins, protocols::simple_moves::bin_transitions::PerturbByBins, protocols::helical_bundle::PerturbBundle, protocols::helical_bundle::PerturbBundleHelix, protocols::ligand_docking::TransformEnsemble, protocols::match::MatcherMover, protocols::simple_moves::RotamerTrialsMover, protocols::simple_moves::SimpleThreadingMover, protocols::antibody::constraints::CDRDihedralConstraintMover, protocols::antibody_legacy::GraftMover, protocols::carbohydrates::SimpleGlycosylateMover, protocols::helical_bundle::MakeBundle, protocols::ligand_docking::Transform, protocols::loops::loop_mover::LoopMover, protocols::membrane::visualize::VisualizeEmbeddingMover, protocols::ncbb::oop::OopDockDesignProtocol, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::surface_docking::SurfaceDockingProtocol, protocols::features::TrajectoryReportToDB, protocols::forge::remodel::RemodelAccumulator, protocols::helical_bundle::MakeBundleHelix, protocols::ligand_docking::StartFrom, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::membrane::OptimizeProteinEmbeddingMover, protocols::ncbb::NcbbDockDesignProtocol, protocols::recces::sampler::rna::MC_RNA_KIC_Sampler, protocols::abinitio::abscript::ConstraintPreparer, protocols::antibody::H3RefineCCD, protocols::denovo_design::movers::BuildDeNovoBackboneMover, protocols::simple_moves::RingConformationMover, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::canonical_sampling::CanonicalSamplingMover, protocols::canonical_sampling::TemperatureController, protocols::fldsgn::MatchResiduesMover, protocols::protein_interface_design::movers::TryRotamers, protocols::simple_moves::BBGaussianMover, protocols::simple_moves::BoltzmannRotamerMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::simple_moves::ShakeStructureMover, protocols::antibody::RefineOneCDRLoop, protocols::helical_bundle::BackboneGridSampler, protocols::hybridization::BackboneTorsionPerturbation, protocols::hybridization::BackboneTorsionSampler, protocols::ligand_docking::HighResDocker, protocols::membrane::RandomPositionRotationMover, protocols::moves::MonteCarloUtil, protocols::simple_moves::CoupledMover, protocols::simple_moves::ReportEffectivePKA, protocols::abinitio::KinematicTaskControl, protocols::antibody::AntibodyCDRGrafter, protocols::dna::DnaInterfacePacker, protocols::rigid::WholeBodyTranslationMover, protocols::rosetta_scripts::ParsedProtocol, protocols::membrane::SetMembranePositionMover, protocols::simple_moves::ConvertRealToVirtualMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::simple_moves::ConvertVirtualToRealMover, protocols::simple_moves::UniformRotationMover, protocols::cyclic_peptide::ThreefoldLinkerMover, protocols::forge::constraints::InvrotTreeRCG, protocols::simple_moves::BackboneMover, protocols::antibody::LHRepulsiveRampLegacy, protocols::docking::DockMinMover, protocols::enzymatic_movers::EnzymaticMover, protocols::moves::MoverContainer, protocols::simple_moves::MinPackMover, protocols::canonical_sampling::AsyncMPITemperingBase, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::carbohydrates::GlycanRelaxMover, protocols::ligand_docking::Translate, protocols::loophash::LoopHashLibrary, protocols::simple_moves::MonteCarloTest, protocols::simple_moves::ScoreMover, protocols::stepwise::modeler::StepWiseConnectionSampler, protocols::docking::DockingInitialPerturbation, protocols::hybridization::DomainAssembly, protocols::kinematic_closure::BalancedKicMover, protocols::ligand_docking::LigandDockProtocol, protocols::simple_moves::MonteCarloReset, protocols::surface_docking::CentroidRelaxMover, protocols::matdes::MatDesGreedyOptMutationMover, protocols::moves::StructureRestrictor, protocols::antibody::AntibodyNumberingConverterMover, protocols::loops::loop_mover::refine::LoopMover_Refine_KIC, protocols::toolbox::SamplerPlusPlus, protocols::canonical_sampling::ParallelTempering, protocols::carbohydrates::GlycanTreeMinMover, protocols::denovo_design::movers::FoldTreeFromFoldGraphMover, protocols::protein_interface_design::movers::LoopRemodel, protocols::sewing::AppendAssemblyMover, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::RotamerizeMover, protocols::comparative_modeling::ExtraThreadingMover, protocols::forge::remodel::RemodelLigandHandler, protocols::LoopRebuild, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::simple_moves::symmetry::SymMinMover, protocols::abinitio::abscript::RigidChunkCM, protocols::antibody::constraints::ParatopeEpitopeSiteConstraintMover, protocols::docking::DockSetupMover, protocols::hybridization::ChunkTrialMover, protocols::hybridization::InsertChunkMover, protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub, protocols::loops::loop_mover::refine::LoopRefineInnerCycle, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::rbsegment_relax::RBSegmentMover, protocols::toolbox::match_enzdes_util::AlignPoseToInvrotTreeMover, protocols::aa_composition::AddCompositionConstraintMover, protocols::aa_composition::ClearCompositionConstraintsMover, protocols::abinitio::abscript::AbscriptLoopCloserCM, protocols::abinitio::abscript::AbscriptMover, protocols::antibody::snugdock::SnugDock, protocols::docking::SidechainMinMover, protocols::hybridization::CartesianHybridize, protocols::rigid::UniformRigidBodyCM, protocols::simple_filters::EvaluatedTrialMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::PertMinMover, protocols::simple_moves::symmetry::SymDockingInitialPerturbation, protocols::canonical_sampling::TemperingBase, protocols::design_opt::GreedyOptMutationMover, protocols::flexpep_docking::FlexPepDockingAbInitio, protocols::ncbb::SecStructMinimizeMover, protocols::nonlocal::BiasedFragmentMover, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::recces::scratch::ThermalMinimizer, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::StorePoseSnapshot, protocols::analysis::LoopAnalyzerMover, protocols::docking::ConformerSwitchMover, protocols::electron_density::VoxelSpacingRefinementMover, protocols::hotspot_hashing::movers::PlaceProbeMover, protocols::recces::scratch::ThermalSamplingMover, protocols::rigid::MembraneNormalPerturbationMover, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::simple_moves::MakePolyXMover, protocols::backbone_moves::local_backbone_mover::LocalBackboneMover, protocols::environment::CoMTrackerCM, protocols::farna::ErraserMinimizerMover, protocols::moves::FilterReporterMover, protocols::moves::JumpOutMover, protocols::pose_length_moves::ConnectChainsMover, protocols::simple_moves::ReturnSidechainMover, protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup, protocols::abinitio::abscript::FragmentCM, protocols::antibody_legacy::AntibodyModeler, protocols::contact_map::ContactMap, protocols::enzdes::EnzRepackMinimize, protocols::flexpep_docking::FlexPepDockingLowRes, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::hybridization::CartesianSampler, protocols::ligand_docking::InterfaceScoreCalculator, protocols::ligand_docking::UnconstrainedTorsionsMover, protocols::loophash::LoopHashDiversifier, protocols::loops::loop_closure::kinematic_closure::KinematicWrapper, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::md::CartesianMD, protocols::moves::ChangeFoldTreeMover, protocols::rosetta_scripts::MultiplePoseMover, protocols::simple_moves::ConstrainToIdealMover, protocols::simple_moves::DME_FilterMover, protocols::stepwise::sampler::rna::RNA_KIC_Sampler, protocols::symmetric_docking::SymFoldandDockRbTrialMover, protocols::antibody::LHRepulsiveRamp, protocols::cyclic_peptide::TryDisulfPermutations, protocols::denovo_design::movers::RotateSegmentMover, protocols::farna::movers::RNA_FragmentMover, protocols::floppy_tail::FloppyTailMover, protocols::generalized_kinematic_closure::GeneralizedKIC, protocols::loops::loop_mover::refine::RepackTrial, protocols::md::MDBase, protocols::normalmode::NormalModeRelaxMover, protocols::protein_interface_design::movers::DisulfideMover, protocols::recces::sampler::rna::MC_RNA_OneJump, protocols::simple_moves::DisulfideInsertionMover, protocols::simple_moves::Tumble, protocols::cyclic_peptide::SymmetricCycpepAlign, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::farna::RNAIdealizeMover, protocols::membrane::benchmark::SampleTiltAngles, protocols::membrane::MPLipidAccessibility, protocols::moves::DsspMover, protocols::rbsegment_relax::FragInsertAndAlignMover, protocols::simple_moves::ShortBackrubMover, protocols::simple_moves::symmetry::SymRotamerTrialsMover, protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler, protocols::aa_composition::AddHelixSequenceConstraintsMover, protocols::antibody::constraints::ParatopeSiteConstraintMover, protocols::antibody::H3PerturbCCD, protocols::antibody::RefineOneCDRLoopCentroid, protocols::matdes::SymDofMover, protocols::moves::PDBDumpMover, protocols::ncbb::SecStructFinder, protocols::rbsegment_relax::RBSegmentRelax, protocols::rosetta_scripts::AdditionalOutputWrapper, protocols::simple_moves::RepackSidechainsMover, protocols::simple_moves::SetTorsion, protocols::symmetric_docking::SymDockingLowRes, protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover, protocols::docking::DockingEnsemblePrepackProtocol, protocols::moves::FilterReportAsPoseExtraScoresMover, protocols::noesy_assign::DistanceScoreMover, protocols::normalmode::NormalModeMinimizer, protocols::protein_interface_design::movers::LoopFinder, protocols::simple_moves::BBDihedralSamplerMover, protocols::simple_moves::CopyRotamerMover, protocols::simple_moves::MSDMover, protocols::simple_moves::SaneMinMover, protocols::simple_moves::symmetry::TaskAwareSymMinMover, protocols::simple_moves::TorsionDOFMover, protocols::symmetric_docking::SymSidechainMinMover, protocols::abinitio::abscript::AbscriptStageMover, protocols::antibody::ModelCDRH3, protocols::denovo_design::movers::BridgeChainsMover, protocols::docking::DockingPrepackProtocol, protocols::enzdes::AddOrRemoveMatchCsts, protocols::farna::movers::RNA_Relaxer, protocols::farna::RNA_FragmentMonteCarlo, protocols::motifs::MotifDnaPacker, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::rosetta_scripts::MultipleOutputWrapper, protocols::stepwise::modeler::rna::phosphate::MultiPhosphateSampler, protocols::stepwise::monte_carlo::mover::AddOrDeleteMover, protocols::docking::EllipsoidalRandomizationMover, protocols::loophash::FastGapMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::simple_moves::MutateResidue, protocols::simple_moves::rational_mc::RationalMonteCarlo, protocols::stepwise::modeler::StepWiseMinimizer, protocols::stepwise::modeler::StepWiseModeler, protocols::stepwise::monte_carlo::mover::AddMover, protocols::surface_docking::FullatomRelaxMover, protocols::antibody::CDRsMinPackMin, protocols::antibody::LHSnugFitLegacy, protocols::denovo_design::movers::SealFoldTreeMover, protocols::enzdes::EnzdesFlexBBProtocol, protocols::farna::RNA_DeNovoProtocol, protocols::helical_bundle::FitSimpleHelix, protocols::membrane::HelixFromSequence, protocols::moves::FilterMover, protocols::recces::sampler::MC_OneTorsion, protocols::simple_moves::AddCavitiesMover, protocols::simple_moves::CstInfoMover, protocols::simple_moves::MergePDBMover, protocols::stepwise::legacy::modeler::rna::RNA_AnalyticLoopCloser, protocols::stepwise::legacy::modeler::rna::StepWiseRNA_PoseSetup, protocols::stepwise::monte_carlo::mover::DeleteMover, protocols::farna::MultipleDomainMover, protocols::denovo_design::movers::AlignResiduesMover, protocols::environment::ScriptCM, protocols::forge::constraints::RemoveRemodelCsts, protocols::loops::loop_mover::IndependentLoopMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::protein_interface_design::movers::RepackMinimize, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::qsar::RenderGridsToKinemage, protocols::simple_moves::StructProfileMover, protocols::stepwise::monte_carlo::rna::RNA_AddDeleteMonteCarlo, protocols::struct_fragment::StructFragmentMover, protocols::abinitio::AbrelaxMover, protocols::abinitio::abscript::StructPerturberCM, protocols::antibody::snugdock::SnugDockProtocol, protocols::denovo_design::movers::AddSegmentDataMover, protocols::denovo_design::movers::MakeAsymmetricStructureDataMover, protocols::forge::remodel::RemodelConstraintGenerator, protocols::ligand_docking::Rotates, protocols::moves::WhileMover, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::protein_interface_design::movers::DockWithHotspotMover, protocols::rbsegment_relax::OptimizeThreadingMover, protocols::simple_moves::chiral::ChiralMover, protocols::stepwise::monte_carlo::mover::StepWiseMasterMover, protocols::stepwise::monte_carlo::StepWiseMonteCarlo, protocols::stepwise::sampler::StepWiseSamplerSized, protocols::antibody::AntibodyModelerProtocol, protocols::antibody::RefineBetaBarrel, protocols::canonical_sampling::HamiltonianExchange, protocols::canonical_sampling::SimulatedTempering, protocols::denovo_design::movers::SetResidueAliasMover, protocols::enzdes::ModifyStoredRBConfs, protocols::fibril::SetupForFibrilMover, protocols::flexpack::FlexPacker, protocols::indel::IndelOptimizationMover, protocols::moves::IfMover, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::sewing::AssemblyMover, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover, protocols::simple_moves::DeleteChainsMover, protocols::simple_moves::MembraneTopology, protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSampler, protocols::stepwise::sampler::StepWiseSamplerOneValue, protocols::antibody::GraftCDRLoopsProtocol, protocols::backrub::BackrubProtocol, protocols::canonical_sampling::ThermodynamicObserver, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::enzdes::SecondaryMatchProtocol, protocols::ligand_docking::MinimizeBackbone, protocols::loophash::Mover_LoopHashRefine, protocols::moves::IteratedConvergenceMover, protocols::moves::RepeatMover, protocols::pose_length_moves::AnalyzeLoopModeling, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::recces::sampler::rna::MC_RNA_Sugar, protocols::rigid::UniformRigidBodyMover, protocols::simple_moves::ddG, protocols::simple_moves::TaskAwareMinMover, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_Closer, protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler, protocols::anchored_design::AnchoredDesignMover, protocols::antibody::H3CterInsert, protocols::cluster::GatherPosesMover, protocols::comparative_modeling::PartialThreadingMover, protocols::constraint_generator::RemoveConstraints, protocols::farna::movers::RNA_Minimizer, protocols::hybridization::WeightedFragmentSmoothTrialMover, protocols::pose_length_moves::InsertResMover, protocols::protein_interface_design::movers::BackrubDDMover, protocols::simple_moves::MissingDensityToJumpMover, protocols::stepwise::modeler::rna::o2prime::O2PrimePacker, protocols::stepwise::modeler::rna::phosphate::PhosphateMover, protocols::stepwise::sampler::StepWiseSamplerSizedComb, protocols::toolbox::task_operations::StoreCompoundTaskMover, protocols::farna::movers::RNA_LoopCloser, protocols::ligand_docking::FinalMinimizer, protocols::nonlocal::HelixRotate, protocols::rigid::MembraneCenterPerturbationMover, protocols::rigid::RollMover, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::FindConsensusSequence, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer, protocols::stepwise::modeler::rna::sugar::VirtualSugarSampler, protocols::stepwise::monte_carlo::rna::RNA_O2PrimeMover, protocols::antibody::GraftedStemOptimizer, protocols::denovo_design::movers::ExtendChainMover, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::DnaInterfaceMultiStateDesign, protocols::domain_assembly::AssembleLinkerMover, protocols::environment::EnvMover, protocols::ligand_docking::SlideTogether, protocols::loop_build::LoopmodelWrapper, protocols::loophash::LoopHashRelaxProtocol, protocols::magnesium::MgMonteCarlo, protocols::matdes::ExtractSubposeMover, protocols::metal_interface::ZincHeterodimerMover, protocols::nonlocal::SheetTranslate, protocols::rigid::RotateJumpAxisMover, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::CyclizationMover, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::simple_moves::symmetry::SymmetricRMSMover, protocols::stepwise::monte_carlo::mover::FromScratchMover, protocols::stepwise::monte_carlo::mover::ResampleMover, protocols::stepwise::monte_carlo::mover::VaryLoopLengthMover, protocols::stepwise::setup::StepWiseJobDistributor, protocols::dna::SeparateDnaFromNonDna, protocols::magnesium::MgHydrater, protocols::make_rot_lib::MakeRotLibMover, protocols::moves::CyclicMover, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::relax::AtomCoordinateCstMover, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::RandomOmegaFlipMover, protocols::simple_moves::RandomTorsionMover, protocols::simple_moves::ResidueTypeConstraintMover, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinKIC_LoopBridger, protocols::stepwise::setup::StepWiseMonteCarloJobDistributor, protocols::topology_broker::RigidBodyRandomTMHMover, protocols::abinitio::ResolutionSwitcher, protocols::constraint_generator::AddConstraints, protocols::enzdes::EnzdesFixBBProtocol, protocols::ligand_docking::CompoundTranslate, protocols::loops::loop_mover::LoopCM, protocols::pose_length_moves::FixAllLoopsMover, protocols::protein_interface_design::movers::LoopOver, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::recces::sampler::MC_Comb, protocols::simple_moves::BBConRotMover, protocols::simple_moves::RepulsiveOnlyMover, protocols::simple_moves::TailsScoreMover, protocols::stepwise::modeler::packer::SideChainCopier, protocols::stepwise::modeler::packer::StepWisePacker, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_MultiPoseCloser, protocols::stepwise::sampler::StepWiseSamplerComb, protocols::symmetric_docking::SymFoldandDockSlideTrialMover, protocols::abinitio::DomainAssembly, protocols::cryst::ReportGradientsMover, protocols::cyclic_peptide::FlipChiralityMover, protocols::enzdes::BackboneSampler, protocols::hybridization::MRMover, protocols::ligand_docking::ComputeLigandRDF, protocols::ligand_docking::TetherLigand, protocols::medal::MedalMover, protocols::membrane::benchmark::MakeCanonicalHelix, protocols::protein_interface_design::movers::MapHotspot, protocols::recces::RECCES_Mover, protocols::sewing::AddStartnodeFragments, protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerWithResidueList, protocols::stepwise::setup::StepWiseCSA_JobDistributor, protocols::ub_e2c::ubi_e2c_modeler, protocols::domain_assembly::PostDockAssemblyScorer, protocols::grafting::simple_movers::ReplaceRegionMover, protocols::ligand_docking::AddHydrogen, protocols::ligand_docking::GrowLigand, protocols::ligand_docking::MinimizeLigand, protocols::ligand_docking::RandomConformers, protocols::magnesium::MgWaterHydrogenPacker, protocols::qsar::scoring_grid::GridInitMover, protocols::rbsegment_relax::IdealizeHelicesMover, protocols::recces::sampler::MC_Any, protocols::simple_moves::oop::OopRandomSmallMover, protocols::simple_moves::SetReturningPackRotamersMover, protocols::simple_moves::TorsionSetMover, protocols::simple_moves::triazolamer::TriazolamerRandomSmallMover, protocols::stepwise::modeler::rna::checker::RNA_ChainClosureChecker, protocols::stepwise::modeler::rna::sugar::VirtualSugarJustInTimeInstantiator, protocols::stepwise::monte_carlo::rna::RNA_TorsionMover, protocols::stepwise::sampler::StepWiseSamplerOneTorsion, protocols::surface_docking::SurfaceOrientMover, protocols::antibody::GraftOneCDRLoop, protocols::features::InterfaceDdGMover, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::grafting::simple_movers::KeepRegionMover, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::LigandDesign, protocols::ligand_docking::RigidSearchMover, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::NucleotideMutation, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::seeded_abinitio::SegmentHybridizer, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::stepwise::modeler::polar_hydrogens::PolarHydrogenPacker, protocols::stepwise::sampler::StepWiseSamplerSizedAny, protocols::ligand_docking::WriteLigandMolFile, protocols::moves::VectorPoseMover, protocols::seeded_abinitio::SeedFoldTree, protocols::simple_moves::a3b_hbs::A3BHbsPatcher, protocols::simple_moves::CombinePoseMover, protocols::simple_moves::CopyDofMover, protocols::simple_moves::oop::OopRandomPuckMover, protocols::simple_moves::ProlineFixMover, protocols::simple_moves::RepeatPropagationMover, protocols::simple_moves::SuperimposeMover, protocols::stepwise::modeler::precomputed::PrecomputedLibraryMover, protocols::stepwise::modeler::rna::sugar::VirtualSugarSamplerFromStringList, protocols::comparative_modeling::StealLigandMover, protocols::farna::FARNA_Optimizer, protocols::matdes::SchemePlaceMotifsMover, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::VLB, protocols::residue_selectors::StoreResidueSubsetMover, protocols::rosetta_scripts::SavePoseMover, protocols::seeded_abinitio::CloseFold, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockMoveRbJumpMover, protocols::simple_moves::PeptideStapleMover, protocols::symmetric_docking::SymDockBaseProtocol, protocols::symmetric_docking::SymFoldandDockMoveRbJumpMover, protocols::toolbox::task_operations::StoreCombinedStoredTasksMover, protocols::dna::DnaInterfaceMinMover, protocols::electron_density::SetupForDensityScoringMover, protocols::grafting::simple_movers::DeleteRegionMover, protocols::moves::CompositionMover, protocols::moves::MoverForPoseList, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::SpinMover, protocols::rbsegment_relax::MakeStarTopologyMover, protocols::simple_moves::PDBReloadMover, protocols::stepwise::modeler::rna::bulge::BulgeUnApplyMover, protocols::antibody::CloseOneCDRLoop, protocols::cyclic_peptide::PeptideCyclizeMover, protocols::grafting::simple_movers::InsertPoseIntoPoseMover, protocols::ligand_docking::RandomConformerMover, protocols::magnesium::MgScanner, protocols::medal::MedalExchangeMover, protocols::mpi_refinement::StructAvrgMover, protocols::protein_interface_design::movers::BuildAlaPose, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::protein_interface_design::movers::RandomMutation, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::TopologyBrokerMover, protocols::rigid::RigidBodyMotionMover, protocols::simple_moves::DeleteChainMover, protocols::simple_moves::oop::OopMover, protocols::simple_moves::oop::OopPatcher, protocols::simple_moves::symmetry::DetectSymmetry, protocols::simple_moves::triazolamer::TriazolamerMover, protocols::stepwise::modeler::rna::bulge::BulgeApplyMover, protocols::stepwise::modeler::rna::sugar::SugarInstantiateMover, protocols::stepwise::modeler::rna::sugar::SugarVirtualizeMover, protocols::toolbox::task_operations::StoreTaskMover, protocols::comparative_modeling::LoopRelaxThreadingMover, protocols::domain_assembly::AddAssemblyConstraints, protocols::hybridization::WeightedFragmentTrialMover, protocols::loophash::LoopHashMoverWrapper, protocols::magnesium::MgMinimizer, protocols::magnesium::MgOrbitalFrameFinder, protocols::moves::NullMover, protocols::simple_moves::hbs::HbsPatcher, protocols::simple_moves::SwitchChainOrderMover, protocols::star::StarAbinitio, protocols::analysis::PackStatMover, protocols::comparative_modeling::StealSideChainsMover, protocols::cyclic_peptide::PeptideStubMover, protocols::domain_assembly::CombineChainsMover, protocols::electron_density::ReportFSC, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::rbsegment_relax::AutoRBMover, protocols::rigid::MovePoseToMembraneCenterMover, protocols::seeded_abinitio::CAcstGenerator, protocols::seeded_abinitio::GrowPeptides, protocols::simple_moves::ChainSplitMover, protocols::simple_moves::DumpPdb, protocols::simple_moves::LoadUnboundRotMover, protocols::electron_density::ScaleMapIntensities, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::LoopLengthChange, protocols::qsar::qsarMover, protocols::relax::MiniRelax, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::LoadPDBMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::PatchdockTransform, protocols::protein_interface_design::movers::SubroutineMover, protocols::RotamerDump::RotamerDumpMover, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::seeded_abinitio::SwapSegment, protocols::simple_moves::CutChainMover, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::simple_moves::AlignChainMover, protocols::comparative_modeling::RecoverSideChainsMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::simple_moves::AddJobPairData, protocols::simple_moves::SequenceProfileMover, protocols::simple_moves::VirtualRootMover, protocols::coupled_moves::CoupledMovesProtocol, protocols::loops::FoldTreeFromLoops, protocols::simple_moves::AddChainMover, protocols::simple_moves::ContingentAcceptMover, protocols::docking::stateless::SaneDockingProtocol, protocols::simple_moves::FavorSymmetricSequence, protocols::simple_moves::ResetBaselineMover, protocols::cyclic_peptide::CreateDistanceConstraint, protocols::simple_moves::PSSM2BfactorMover, protocols::cyclic_peptide::CreateAngleConstraint, protocols::cyclic_peptide::CreateTorsionConstraint, protocols::cyclic_peptide::DeclareBond, protocols::loop_build::LoopBuildMover, protocols::simple_moves::ClearConstraintsMover, protocols::simple_moves::ResetFoldTree, and protocols::RBSegmentRelaxImpl.
Referenced by protocols::comparative_modeling::RecoverSideChainsMover::apply(), protocols::jobdist::main_atom_tree_diff_mover(), protocols::jobdist::main_plain_mover(), protocols::jobdist::main_plain_pdb_mover(), protocols::jobdist::not_universal_main(), test_move(), and protocols::jobdist::universal_main().
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inlinevirtual |
Strings container can be used to return miscellaneous info (as std::string) from a mover, such as notes about the results of apply(). The job distributor (Apr 09 vintage) will check this function to see if your protocol wants to add string info to the Job that ran this mover. One way this can be useful is that later, a JobOutputter may include/append this info to an output file.
clear_info is called by jd2 before calling apply
References info_.
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virtual |
Return a clone of the Mover object.
clone is meant to return an OP'ed deep copy of this object. This really should be a pure virtual in the base class, but adding pure virtuals to Mover would massively disrupt the code. This default implementation crashes at runtime instead of compiletime if you try to call it. If this code is causing you problems, your Mover needs to override this function.
Reimplemented in protocols::rigid::RigidBodyTransMover, protocols::rigid::RigidBodyTiltMover, protocols::rbsegment_relax::StrandTwistingMover, protocols::moves::PyMOLMover, protocols::rbsegment_relax::GaussianRBSegmentMover, protocols::hbnet::HBNet, protocols::simple_moves::ShearMover, protocols::denovo_design::movers::SetPoseSecstructFromStructureDataMover, protocols::cluster::AssignToClustersMover, protocols::membrane::TranslationRotationMover, protocols::cluster::ClusterPhilStyle_PoseReporter, protocols::cryst::SetRefinementOptionsMover, protocols::enzdes::UpdateEnzdesHeaderMover, protocols::cryst::MakeLatticeMover, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::cluster::ClusterPhilStyle_Loop, protocols::simple_moves::SmallMover, protocols::rbsegment_relax::SequenceShiftMover, protocols::cluster::ClusterPhilStyle, protocols::cryst::TagPoseWithRefinementStatsMover, protocols::membrane::SetMembraneCenterMover, protocols::moves::CycleMover, protocols::analysis::InterfaceAnalyzerMover, protocols::cryst::UpdateSolventMover, protocols::simple_moves::BBG8T3AMover, protocols::canonical_sampling::FixedTemperatureController, protocols::membrane::RotationMover, protocols::rbsegment_relax::HelicalGaussianMover, protocols::forge::remodel::ResidueVicinityRCG, protocols::abinitio::JumpingFoldConstraintsWrapper, protocols::motif_grafting::movers::MotifGraftMover, protocols::comparative_modeling::LoopRelaxMover, protocols::cryst::FitBfactorsMover, protocols::antibody::AntibodyCDRGrafter, protocols::enzdes::PredesignPerturbMover, protocols::moves::RandomMover, protocols::hybridization::FoldTreeHybridize, protocols::carbohydrates::SimpleGlycosylateMover, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::forge::remodel::GenericRemodelConstraintGenerator, protocols::symmetric_docking::SymDockProtocol, protocols::membrane::SetMembraneNormalMover, protocols::cryst::DockLatticeMover, protocols::moves::RampingMover, protocols::abinitio::ClassicAbinitio, protocols::cryst::LoadDensityMapMover, protocols::simple_moves::ClassicFragmentMover, protocols::carbohydrates::LinkageConformerMover, protocols::membrane::AddMembraneMover, protocols::moves::TrialMover, protocols::cryst::MakeLayerMover, protocols::abinitio::MembraneAbinitio, protocols::farna::RNAThreadAndMinimizeMover, protocols::simple_moves::PackRotamersMover, protocols::abinitio::FragmentSampler, protocols::carbohydrates::GlycanRelaxMover, protocols::relax::FastRelax, protocols::antibody::constraints::CDRDihedralConstraintMover, protocols::moves::SequenceMover, protocols::forge::remodel::RemodelLoopMover, protocols::forge::components::VarLengthBuild, protocols::simple_moves::MinMover, protocols::simple_moves::GenericMonteCarloMover, protocols::cluster::EnsembleConstraints_Simple, protocols::forge::remodel::RemodelMover, protocols::simple_moves::ChangeAndResetFoldTreeMover, protocols::cryst::RecomputeDensityMapMover, protocols::docking::DockingInitialPerturbation, protocols::cyclic_peptide::ThreefoldLinkerMover, protocols::hybridization::HybridizeProtocol, protocols::pose_length_moves::NearNativeLoopCloser, protocols::fldsgn::BluePrintBDR, protocols::comparative_modeling::ThreadingMover, protocols::rosetta_scripts::ParsedProtocol, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::grafting::CCDEndsGraftMover, protocols::sewing::AssemblyConstraintsMover, protocols::forge::components::BDR, protocols::abinitio::ConstraintFragmentSampler, protocols::flxbb::FlxbbDesign, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::antibody::design::AntibodyDesignMover, protocols::docking::DockingProtocol, protocols::simple_moves::MinPackMover, protocols::simple_moves::BBDihedralSamplerMover, protocols::grafting::AnchoredGraftMover, protocols::loops::loop_closure::ccd::CCDLoopClosureMover, protocols::membrane::TranslationMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::membrane::symmetry::SymmetricAddMembraneMover, protocols::simple_moves::ConvertRealToVirtualMover, protocols::abinitio::FoldConstraints, protocols::denovo_design::movers::FastDesign, protocols::simple_moves::ConvertVirtualToRealMover, protocols::simple_moves::SimpleThreadingMover, protocols::backrub::BackrubProtocol, protocols::simple_moves::PeriodicBoxMover, protocols::ncbb::oop::OopCreatorMover, protocols::recces::scratch::ThermalMinimizer, protocols::hybridization::CartesianHybridize, protocols::recces::scratch::ThermalSamplingMover, protocols::simple_moves::symmetry::SetupNCSMover, protocols::fldsgn::CircularPermutation, protocols::nonlocal::SingleFragmentMover, protocols::simple_moves::PertMinMover, protocols::carbohydrates::GlycanTreeMinMover, protocols::membrane::TransformIntoMembraneMover, protocols::antibody::AntibodyNumberingConverterMover, protocols::denovo_design::movers::FoldTreeFromFoldGraphMover, protocols::electron_density::BfactorFittingMover, protocols::simple_moves::CopyRotamerMover, protocols::cryst::UpdateCrystInfo, protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::hybridization::BackboneTorsionPerturbation, protocols::hybridization::BackboneTorsionSampler, protocols::protein_interface_design::movers::PlaceStubMover, protocols::abinitio::abscript::AbscriptMover, protocols::docking::membrane::MPDockingMover, protocols::membrane::MPLipidAccessibility, protocols::protein_interface_design::movers::TryRotamers, protocols::simple_moves::DeleteChainsMover, protocols::simple_moves::EvolutionaryDynamicsMover, protocols::backbone_moves::local_backbone_mover::LocalBackboneMover, protocols::membrane::FlipMover, protocols::moves::MonteCarloUtil, protocols::simple_moves::CstInfoMover, protocols::forge::constraints::InverseRotamersRCG, protocols::ligand_docking::HighResEnsemble, protocols::simple_moves::GenericSimulatedAnnealer, protocols::antibody::RefineOneCDRLoop, protocols::cyclic_peptide::SymmetricCycpepAlign, protocols::ncbb::oop::OopDockDesignProtocol, protocols::aa_composition::AddHelixSequenceConstraintsMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::farna::RNAIdealizeMover, protocols::helical_bundle::BundleGridSampler, protocols::membrane::benchmark::SampleTiltAngles, protocols::membrane::HelixFromSequence, protocols::ncbb::NcbbDockDesignProtocol, protocols::cryst::SetCrystWeightMover, protocols::denovo_design::movers::BridgeChainsMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD, protocols::membrane::SetMembranePositionMover, protocols::moves::FilterReportAsPoseExtraScoresMover, protocols::rigid::UniformRigidBodyCM, protocols::simple_moves::ReportEffectivePKA, protocols::denovo_design::movers::RotateSegmentMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC, protocols::membrane::visualize::VisualizeMembraneMover, protocols::relax::LocalRelax, protocols::simple_moves::RepackSidechainsMover, protocols::abinitio::KinematicAbinitio, protocols::hybridization::CartesianSampler, protocols::membrane::TiltMover, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::denovo_design::movers::SealFoldTreeMover, protocols::docking::DockMCMCycle, protocols::environment::CoMTrackerCM, protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD, protocols::membrane::AddMPLigandMover, protocols::membrane::SpinAroundPartnerMover, protocols::forge::remodel::RemodelGlobalFrame, protocols::helical_bundle::PerturbBundle, protocols::helical_bundle::PerturbBundleHelix, protocols::membrane::MPQuickRelaxMover, protocols::normalmode::NormalModeMinimizer, protocols::simple_moves::RotamerTrialsMover, protocols::abinitio::abscript::ConstraintPreparer, protocols::denovo_design::movers::AddSegmentDataMover, protocols::denovo_design::movers::MakeAsymmetricStructureDataMover, protocols::docking::DockMCMProtocol, protocols::features::ReportToDB, protocols::helical_bundle::MakeBundle, protocols::surface_docking::SurfaceDockingProtocol, protocols::denovo_design::movers::AlignResiduesMover, protocols::denovo_design::movers::SetResidueAliasMover, protocols::grafting::simple_movers::KeepRegionMover, protocols::hbnet::HBNetStapleInterface, protocols::helical_bundle::MakeBundleHelix, protocols::relax::ClassicRelax, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::abinitio::abscript::FragmentJumpCM, protocols::abinitio::abscript::RigidChunkCM, protocols::canonical_sampling::ParallelTempering, protocols::abinitio::abscript::AbscriptLoopCloserCM, protocols::denovo_design::movers::BuildDeNovoBackboneMover, protocols::dna::DnaInterfacePacker, protocols::docking::DockingLowRes, protocols::ligand_docking::Rotate, protocols::loop_build::LoopMover_SlidingWindow, protocols::loophash::LoopHashLibrary, protocols::simple_moves::BoltzmannRotamerMover, protocols::features::InterfaceDdGMover, protocols::helical_bundle::BackboneGridSampler, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::relax::membrane::MPFastRelaxMover, protocols::simple_moves::CoupledMover, protocols::symmetric_docking::membrane::MPSymDockMover, protocols::docking::DockingHighResLegacy, protocols::flxbb::InterlockAroma, protocols::ligand_docking::TransformEnsemble, protocols::membrane::visualize::VisualizeEmbeddingMover, protocols::simple_moves::bin_transitions::InitializeByBins, protocols::simple_moves::bin_transitions::PerturbByBins, protocols::simple_moves::StorePoseSnapshot, protocols::docking::membrane::MPDockingSetupMover, protocols::docking::membrane::MPFindInterfaceMover, protocols::forge::constraints::InvrotTreeRCG, protocols::loophash::LoopHashDiversifier, protocols::matdes::MatDesGreedyOptMutationMover, protocols::simple_moves::BBGaussianMover, protocols::simple_moves::Tumble, protocols::environment::ScriptCM, protocols::ligand_docking::Transform, protocols::membrane::OptimizeMembranePositionMover, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::simple_moves::symmetry::SymMinMover, protocols::abinitio::abscript::StructPerturberCM, protocols::constraint_generator::RemoveConstraints, protocols::forge::constraints::RemoveRemodelCsts, protocols::antibody::snugdock::SnugDock, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::membrane::benchmark::MakeCanonicalHelix, protocols::relax::membrane::MPRangeRelaxMover, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::RingConformationMover, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::docking::membrane::QuickRelaxPartnersSeparately, protocols::electron_density::VoxelSpacingRefinementMover, protocols::hotspot_hashing::movers::PlaceSurfaceProbe, protocols::loops::loop_mover::refine::LoopMover_Refine_KIC, protocols::matdes::SymDofMover, protocols::simple_moves::ConstrainToIdealMover, protocols::symmetric_docking::SymDockingHiRes, protocols::constraint_generator::AddConstraints, protocols::features::TrajectoryReportToDB, protocols::forge::remodel::RemodelAccumulator, protocols::ligand_docking::HighResDocker, protocols::loop_modeling::LoopModeler, protocols::membrane::MembranePositionFromTopologyMover, protocols::protein_interface_design::movers::LoopRemodel, protocols::surface_docking::CentroidRelaxMover, protocols::denovo_design::DisulfidizeMover, protocols::denovo_design::movers::ExtendChainMover, protocols::design_opt::GreedyOptMutationMover, protocols::match::MatcherMover, protocols::moves::IteratedConvergenceMover, protocols::simple_moves::ReturnSidechainMover, protocols::antibody_legacy::AntibodyModeler, protocols::canonical_sampling::DbTrajectoryRecorder, protocols::farna::movers::RNA_FragmentMover, protocols::fldsgn::MatchResiduesMover, protocols::forge::remodel::RemodelDesignMover, protocols::grafting::simple_movers::ReplaceRegionMover, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::membrane::MPMutateRelaxMover, protocols::pose_length_moves::ConnectChainsMover, protocols::simple_moves::MonteCarloReset, protocols::simple_moves::MonteCarloTest, protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover, protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover, protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover, protocols::antibody::H3RefineCCD, protocols::canonical_sampling::MetricRecorder, protocols::dna::DnaInterfaceMultiStateDesign, protocols::docking::EllipsoidalRandomizationMover, protocols::enzdes::EnzRepackMinimize, protocols::forge::constraints::NtoCConstraintGenerator, protocols::loops::loop_mover::refine::RepackTrial, protocols::moves::FilterReporterMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::simple_moves::ddG, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::docking::DockingLowResEnsemble, protocols::grafting::simple_movers::InsertPoseIntoPoseMover, protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub, protocols::protein_interface_design::movers::DisulfideMover, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::rigid::UniformRigidBodyMover, protocols::backrub::BackrubMover, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::enzymatic_movers::EnzymaticMover, protocols::ncbb::SecStructFinder, protocols::backrub::BackrubSidechainMover, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::SeparateDnaFromNonDna, protocols::docking::TemperedDocking, protocols::ligand_docking::Translate, protocols::md::CartesianMD, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::SetTorsion, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::membrane::OptimizeProteinEmbeddingMover, protocols::simple_moves::symmetry::TaskAwareSymMinMover, protocols::antibody::LHRepulsiveRampLegacy, protocols::canonical_sampling::HamiltonianExchange, protocols::canonical_sampling::SimulatedTempering, protocols::dna::DnaInterfaceMinMover, protocols::environment::EnvMover, protocols::forge::remodel::RemodelLigandHandler, protocols::grafting::simple_movers::DeleteRegionMover, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::analysis::LoopAnalyzerMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::simple_moves::DisulfideInsertionMover, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::MergePDBMover, protocols::simple_moves::MutateResidue, protocols::struct_fragment::StructFragmentMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_Moves, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::normalmode::NormalModeRelaxMover, protocols::relax::CentroidRelax, protocols::rigid::RollMover, protocols::antibody::snugdock::SnugDockProtocol, protocols::docking::DockSetupMover, protocols::enzymatic_movers::GlycosyltransferaseMover, protocols::generalized_kinematic_closure::GeneralizedKIC, protocols::idealize::IdealizeMover, protocols::LoopRebuild, protocols::protein_interface_design::movers::LoopFinder, protocols::protein_interface_design::movers::MapHotspot, protocols::protein_interface_design::movers::RepackMinimize, protocols::simple_moves::StructProfileMover, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler, protocols::cyclic_peptide::TryDisulfPermutations, protocols::nonlocal::HelixRotate, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::protein_interface_design::movers::DockWithHotspotMover, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::simple_moves::ShortBackrubMover, protocols::simple_moves::TaskAwareMinMover, protocols::aa_composition::AddCompositionConstraintMover, protocols::aa_composition::ClearCompositionConstraintsMover, protocols::anchored_design::AnchoredDesignMover, protocols::antibody::design::AntibodyDesignProtocol, protocols::motifs::MotifDnaPacker, protocols::moves::DsspMover, protocols::moves::RepeatMover, protocols::ncbb::SecStructMinimizeMover, protocols::nonlocal::SheetTranslate, protocols::rosetta_scripts::MultiplePoseMover, protocols::simple_moves::MembraneTopology, protocols::simple_moves::ScoreMover, protocols::stepwise::modeler::rna::phosphate::MultiPhosphateSampler, protocols::antibody::H3PerturbCCD, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::canonical_sampling::ProgressBarObserver, protocols::ligand_docking::MinimizeBackbone, protocols::loophash::Mover_LoopHashRefine, protocols::pose_length_moves::AnalyzeLoopModeling, protocols::simple_moves::SuperimposeMover, protocols::contact_map::ContactMap, protocols::enzdes::AddOrRemoveMatchCsts, protocols::farna::RNA_DeNovoProtocol, protocols::loophash::LoopHashRelaxProtocol, protocols::pose_length_moves::InsertResMover, protocols::protein_interface_design::movers::BackrubDDMover, protocols::qsar::RenderGridsToKinemage, protocols::rbsegment_relax::FragInsertAndAlignMover, protocols::relax::AtomCoordinateCstMover, protocols::sewing::RepeatAssemblyMover, protocols::simple_moves::MissingDensityToJumpMover, protocols::toolbox::task_operations::StoreCompoundTaskMover, protocols::ligand_docking::FinalMinimizer, protocols::rbsegment_relax::OptimizeThreadingMover, protocols::rosetta_scripts::AdditionalOutputWrapper, protocols::simple_moves::ConstraintSetMover, protocols::canonical_sampling::TrialCounterObserver, protocols::enzdes::BackboneSampler, protocols::helical_bundle::FitSimpleHelix, protocols::ligand_docking::SlideTogether, protocols::matdes::ExtractSubposeMover, protocols::moves::CyclicMover, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::ResidueTypeConstraintMover, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::farna::MultipleDomainMover, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::medal::MedalMover, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::protein_interface_design::movers::SpinMover, protocols::rosetta_scripts::MultipleOutputWrapper, protocols::simple_moves::RandomOmegaFlipMover, protocols::simple_moves::RandomTorsionMover, protocols::simple_moves::SaneMinMover, protocols::surface_docking::FullatomRelaxMover, protocols::cyclic_peptide::FlipChiralityMover, protocols::hybridization::MRMover, protocols::moves::StructureRestrictor, protocols::pose_length_moves::FixAllLoopsMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::antibody::LHSnugFitLegacy, protocols::ub_e2c::ubi_e2c_modeler, protocols::ligand_docking::ComputeLigandRDF, protocols::loophash::FastGapMover, protocols::loophash::LoopHashMoverWrapper, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::symmetric_docking::SymDockingLowRes, protocols::antibody::LHRepulsiveRamp, protocols::ligand_docking::GrowLigand, protocols::ligand_docking::InterfaceScoreCalculator, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::simple_moves::MSDMover, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::stepwise::legacy::modeler::rna::RNA_AnalyticLoopCloser, protocols::antibody::GraftCDRLoopsProtocol, protocols::farna::movers::RNA_Minimizer, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::LigandDesign, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::NucleotideMutation, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::sewing::MonteCarloAssemblyMover, protocols::simple_moves::PDBReloadMover, protocols::antibody::AntibodyModelerProtocol, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::moves::IfMover, protocols::seeded_abinitio::SeedFoldTree, protocols::seeded_abinitio::SegmentHybridizer, protocols::simple_moves::RepeatPropagationMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::abinitio::DomainAssembly, protocols::cryst::ReportGradientsMover, protocols::farna::movers::RNA_LoopCloser, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::VLB, protocols::residue_selectors::StoreResidueSubsetMover, protocols::rosetta_scripts::SavePoseMover, protocols::seeded_abinitio::CloseFold, protocols::sewing::AppendAssemblyMover, protocols::simple_moves::PeptideStapleMover, protocols::toolbox::task_operations::StoreCombinedStoredTasksMover, protocols::cyclic_peptide::PeptideCyclizeMover, protocols::electron_density::SetupForDensityScoringMover, protocols::ligand_docking::StartFrom, protocols::matdes::SchemePlaceMotifsMover, protocols::medal::MedalExchangeMover, protocols::protein_interface_design::movers::LoopOver, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::rbsegment_relax::IdealizeHelicesMover, protocols::electron_density::ReportFSC, protocols::ligand_docking::Rotates, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::BuildAlaPose, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::RandomMutation, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::TopologyBrokerMover, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::LoadUnboundRotMover, protocols::simple_moves::SequenceProfileMover, protocols::simple_moves::SwitchChainOrderMover, protocols::simple_moves::symmetry::DetectSymmetry, protocols::star::StarAbinitio, protocols::toolbox::task_operations::StoreTaskMover, protocols::cyclic_peptide::PeptideStubMover, protocols::electron_density::ScaleMapIntensities, protocols::loop_build::LoopmodelWrapper, protocols::moves::NullMover, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::seeded_abinitio::CAcstGenerator, protocols::sewing::EnumerateAssemblyMover, protocols::sewing::GivenPathAssemblyMover, protocols::sewing::GreedyAssemblyMover, protocols::simple_moves::CutChainMover, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::seeded_abinitio::GrowPeptides, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::DumpPdb, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::LoadPDBMover, protocols::protein_interface_design::movers::LoopLengthChange, protocols::rbsegment_relax::MakeStarTopologyMover, protocols::seeded_abinitio::SwapSegment, protocols::simple_moves::ChainSplitMover, protocols::fldsgn::SheetRemodelConstraintGenerator, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::PatchdockTransform, protocols::protein_interface_design::movers::SubroutineMover, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::AlignChainMover, protocols::simple_moves::FindConsensusSequence, protocols::sewing::AddStartnodeFragments, protocols::simple_moves::AddJobPairData, protocols::coupled_moves::CoupledMovesProtocol, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::relax::MiniRelax, protocols::ligand_docking::CompoundTranslate, protocols::loops::FoldTreeFromLoops, protocols::simple_moves::AddChainMover, protocols::simple_moves::ContingentAcceptMover, protocols::simple_moves::ResetBaselineMover, protocols::cyclic_peptide::CreateDistanceConstraint, protocols::qsar::scoring_grid::GridInitMover, protocols::simple_moves::PSSM2BfactorMover, protocols::cyclic_peptide::CreateAngleConstraint, protocols::cyclic_peptide::CreateTorsionConstraint, protocols::ligand_docking::RandomConformers, protocols::cyclic_peptide::DeclareBond, protocols::ligand_docking::WriteLigandMolFile, protocols::simple_moves::DeleteChainMover, protocols::simple_moves::VirtualRootMover, protocols::simple_moves::ClearConstraintsMover, protocols::simple_moves::ResetFoldTree, and protocols::simple_moves::FavorSymmetricSequence.
Referenced by protocols::denovo_design::movers::BuildDeNovoBackboneMover::add_postfold_mover(), protocols::denovo_design::movers::BuildDeNovoBackboneMover::add_prefold_mover(), protocols::abinitio::ResolutionSwitcher::apply(), protocols::abinitio::AbrelaxMover::apply(), protocols::enzdes::GenerateStoredRBConfs::apply(), protocols::enzdes::ApplyRandomStoredRBConf::apply(), protocols::jd2::MSDJobDistributor::apply_parsed_protocol(), protocols::enzdes::BackboneSampler::BackboneSampler(), protocols::enzdes::DiversifyStoredRBConfs::diversify_all_confs(), protocols::relax::RelaxProtocolBase::fresh_instance(), protocols::recces::sampler::rna::MC_RNA_OneJump::MC_RNA_OneJump(), protocols::enzdes::MinimizeStoredRBConfs::rb_minimize_all_confs(), and protocols::simple_moves::symmetry::SymmetrySlider::very_far_away().
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virtual |
References fresh_instance().
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virtual |
Generates a new Mover object freshly created with the default ctor.
fresh_instance is meant to return a new object of this class, created with the default constructor. This really should be a pure virtual in the base class, but adding pure virtuals to Mover would massively disrupt the code. This default implementation crashes at runtime instead of compiletime if you try to call it. If this code is causing you problems, your Mover needs to override this function. This is used by the August 08 job distributor.
Reimplemented in protocols::rigid::RigidBodyTransMover, protocols::rigid::RigidBodyTiltMover, protocols::moves::PyMOLMover, protocols::hbnet::HBNet, protocols::simple_moves::ShearMover, protocols::membrane::TranslationRotationMover, protocols::cryst::MakeLatticeMover, protocols::simple_moves::SmallMover, protocols::membrane::SetMembraneCenterMover, protocols::moves::CycleMover, protocols::analysis::InterfaceAnalyzerMover, protocols::membrane::RotationMover, protocols::forge::remodel::ResidueVicinityRCG, protocols::comparative_modeling::LoopRelaxMover, protocols::antibody::AntibodyCDRGrafter, protocols::enzdes::PredesignPerturbMover, protocols::moves::RandomMover, protocols::hybridization::FoldTreeHybridize, protocols::carbohydrates::SimpleGlycosylateMover, protocols::membrane::SetMembraneNormalMover, protocols::cryst::DockLatticeMover, protocols::simple_moves::ClassicFragmentMover, protocols::membrane::AddMembraneMover, protocols::moves::TrialMover, protocols::carbohydrates::LinkageConformerMover, protocols::cryst::MakeLayerMover, protocols::antibody::constraints::CDRDihedralConstraintMover, protocols::farna::RNAThreadAndMinimizeMover, protocols::forge::remodel::RemodelLoopMover, protocols::ligand_docking::LigandDockMain, protocols::forge::components::VarLengthBuild, protocols::moves::SequenceMover, protocols::simple_moves::PackRotamersMover, protocols::carbohydrates::GlycanRelaxMover, protocols::simple_moves::MinMover, protocols::simple_moves::GenericMonteCarloMover, protocols::forge::remodel::RemodelMover, protocols::simple_moves::ChangeAndResetFoldTreeMover, protocols::hybridization::HybridizeProtocol, protocols::fldsgn::BluePrintBDR, protocols::cyclic_peptide::ThreefoldLinkerMover, protocols::comparative_modeling::ThreadingMover, protocols::forge::components::BDR, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::flxbb::FlxbbDesign, protocols::grafting::CCDEndsGraftMover, protocols::sewing::AssemblyConstraintsMover, protocols::rosetta_scripts::ParsedProtocol, protocols::antibody::design::AntibodyDesignMover, protocols::docking::DockingProtocol, protocols::grafting::AnchoredGraftMover, protocols::membrane::symmetry::SymmetricAddMembraneMover, protocols::membrane::TranslationMover, protocols::loops::loop_closure::ccd::CCDLoopClosureMover, protocols::simple_moves::SimpleThreadingMover, protocols::backrub::BackrubProtocol, protocols::simple_moves::MinPackMover, protocols::fldsgn::CircularPermutation, protocols::simple_moves::BBDihedralSamplerMover, protocols::simple_moves::PeriodicBoxMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::nonlocal::SingleFragmentMover, protocols::hybridization::CartesianHybridize, protocols::membrane::TransformIntoMembraneMover, protocols::ncbb::oop::OopCreatorMover, protocols::simple_moves::ConvertRealToVirtualMover, protocols::denovo_design::movers::FastDesign, protocols::simple_moves::ConvertVirtualToRealMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::recces::scratch::ThermalMinimizer, protocols::electron_density::BfactorFittingMover, protocols::hybridization::BackboneTorsionPerturbation, protocols::hybridization::BackboneTorsionSampler, protocols::recces::scratch::ThermalSamplingMover, protocols::cryst::UpdateCrystInfo, protocols::docking::membrane::MPDockingMover, protocols::simple_moves::DeleteChainsMover, protocols::simple_moves::EvolutionaryDynamicsMover, protocols::simple_moves::PertMinMover, protocols::carbohydrates::GlycanTreeMinMover, protocols::membrane::FlipMover, protocols::protein_interface_design::movers::PlaceStubMover, protocols::protein_interface_design::movers::TryRotamers, protocols::antibody::AntibodyNumberingConverterMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::denovo_design::movers::FoldTreeFromFoldGraphMover, protocols::moves::MonteCarloUtil, protocols::simple_moves::GenericSimulatedAnnealer, protocols::simple_moves::CopyRotamerMover, protocols::abinitio::abscript::AbscriptMover, protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover, protocols::ligand_docking::HighResEnsemble, protocols::membrane::SetMembranePositionMover, protocols::helical_bundle::BundleGridSampler, protocols::membrane::MPLipidAccessibility, protocols::backbone_moves::local_backbone_mover::LocalBackboneMover, protocols::forge::constraints::InverseRotamersRCG, protocols::membrane::visualize::VisualizeMembraneMover, protocols::ncbb::oop::OopDockDesignProtocol, protocols::simple_moves::CstInfoMover, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::loophash::LoopHashLibrary, protocols::membrane::TiltMover, protocols::ncbb::NcbbDockDesignProtocol, protocols::simple_moves::ReportEffectivePKA, protocols::membrane::AddMPLigandMover, protocols::membrane::SpinAroundPartnerMover, protocols::cyclic_peptide::SymmetricCycpepAlign, protocols::forge::remodel::RemodelGlobalFrame, protocols::hybridization::CartesianSampler, protocols::membrane::MPQuickRelaxMover, protocols::simple_moves::RotamerTrialsMover, protocols::aa_composition::AddHelixSequenceConstraintsMover, protocols::farna::RNAIdealizeMover, protocols::membrane::benchmark::SampleTiltAngles, protocols::membrane::HelixFromSequence, protocols::canonical_sampling::ParallelTempering, protocols::denovo_design::movers::BridgeChainsMover, protocols::grafting::simple_movers::KeepRegionMover, protocols::helical_bundle::PerturbBundle, protocols::helical_bundle::PerturbBundleHelix, protocols::moves::FilterReportAsPoseExtraScoresMover, protocols::normalmode::NormalModeMinimizer, protocols::rigid::UniformRigidBodyCM, protocols::surface_docking::SurfaceDockingProtocol, protocols::antibody::design::MutateFrameworkForCluster, protocols::denovo_design::movers::RotateSegmentMover, protocols::helical_bundle::MakeBundle, protocols::simple_moves::bin_transitions::InitializeByBins, protocols::simple_moves::bin_transitions::PerturbByBins, protocols::simple_moves::RepackSidechainsMover, protocols::simple_moves::StorePoseSnapshot, protocols::flxbb::InterlockAroma, protocols::hbnet::HBNetStapleInterface, protocols::helical_bundle::MakeBundleHelix, protocols::simple_moves::BoltzmannRotamerMover, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::symmetric_docking::membrane::MPSymDockMover, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::environment::CoMTrackerCM, protocols::relax::membrane::MPFastRelaxMover, protocols::simple_moves::CoupledMover, protocols::abinitio::abscript::ConstraintPreparer, protocols::denovo_design::movers::SealFoldTreeMover, protocols::features::ReportToDB, protocols::ligand_docking::Rotate, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::membrane::visualize::VisualizeEmbeddingMover, protocols::docking::membrane::MPDockingSetupMover, protocols::docking::membrane::MPFindInterfaceMover, protocols::helical_bundle::BackboneGridSampler, protocols::abinitio::abscript::FragmentJumpCM, protocols::denovo_design::movers::AddSegmentDataMover, protocols::denovo_design::movers::MakeAsymmetricStructureDataMover, protocols::dna::DnaInterfacePacker, protocols::ligand_docking::TransformEnsemble, protocols::matdes::MatDesGreedyOptMutationMover, protocols::membrane::OptimizeMembranePositionMover, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::simple_moves::Tumble, protocols::denovo_design::movers::AlignResiduesMover, protocols::denovo_design::movers::SetResidueAliasMover, protocols::loophash::LoopHashDiversifier, protocols::ligand_docking::Transform, protocols::matdes::SymDofMover, protocols::relax::membrane::MPRangeRelaxMover, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::symmetry::SymMinMover, protocols::denovo_design::movers::BuildDeNovoBackboneMover, protocols::docking::membrane::QuickRelaxPartnersSeparately, protocols::match::MatcherMover, protocols::simple_moves::RingConformationMover, protocols::antibody::snugdock::SnugDock, protocols::features::InterfaceDdGMover, protocols::forge::remodel::RemodelAccumulator, protocols::membrane::MembranePositionFromTopologyMover, protocols::canonical_sampling::MetricRecorder, protocols::electron_density::VoxelSpacingRefinementMover, protocols::floppy_tail::FloppyTailMover, protocols::forge::constraints::InvrotTreeRCG, protocols::surface_docking::CentroidRelaxMover, protocols::design_opt::GreedyOptMutationMover, protocols::environment::ScriptCM, protocols::fldsgn::MatchResiduesMover, protocols::forge::remodel::RemodelDesignMover, protocols::grafting::simple_movers::ReplaceRegionMover, protocols::ligand_docking::HighResDocker, protocols::membrane::MPMutateRelaxMover, protocols::protein_interface_design::movers::LoopRemodel, protocols::simple_moves::MonteCarloReset, protocols::simple_moves::MonteCarloTest, protocols::canonical_sampling::DbTrajectoryRecorder, protocols::forge::constraints::RemoveRemodelCsts, protocols::simple_moves::ConstrainToIdealMover, protocols::simple_moves::ReturnSidechainMover, protocols::constraint_generator::RemoveConstraints, protocols::docking::EllipsoidalRandomizationMover, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::moves::FilterReporterMover, protocols::normalmode::NormalModeRelaxMover, protocols::protein_interface_design::movers::DisulfideMover, protocols::backrub::BackrubSidechainMover, protocols::enzdes::EnzRepackMinimize, protocols::features::TrajectoryReportToDB, protocols::loops::loop_mover::refine::RepackTrial, protocols::membrane::benchmark::MakeCanonicalHelix, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::enzymatic_movers::EnzymaticMover, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::SetTorsion, protocols::backrub::BackrubMover, protocols::canonical_sampling::HamiltonianExchange, protocols::canonical_sampling::SimulatedTempering, protocols::constraint_generator::AddConstraints, protocols::denovo_design::movers::ExtendChainMover, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::membrane::OptimizeProteinEmbeddingMover, protocols::moves::IteratedConvergenceMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::simple_moves::ddG, protocols::dna::DnaInterfaceMultiStateDesign, protocols::forge::remodel::RemodelLigandHandler, protocols::grafting::simple_movers::DeleteRegionMover, protocols::ligand_docking::Translate, protocols::loophash::Mover_LoopHashRefine, protocols::simple_moves::ConsensusDesignMover, protocols::abinitio::AbrelaxMover, protocols::forge::constraints::NtoCConstraintGenerator, protocols::ncbb::SecStructFinder, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::MutateResidue, protocols::simple_moves::symmetry::TaskAwareSymMinMover, protocols::struct_fragment::StructFragmentMover, protocols::idealize::IdealizeMover, protocols::md::CartesianMD, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::rigid::UniformRigidBodyMover, protocols::analysis::LoopAnalyzerMover, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::SeparateDnaFromNonDna, protocols::simple_moves::MergePDBMover, protocols::aa_composition::AddCompositionConstraintMover, protocols::aa_composition::ClearCompositionConstraintsMover, protocols::enzymatic_movers::GlycosyltransferaseMover, protocols::loophash::LoopHashRelaxProtocol, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::nonlocal::HelixRotate, protocols::protein_interface_design::movers::DockWithHotspotMover, protocols::rosetta_scripts::MultiplePoseMover, protocols::simple_moves::ShortBackrubMover, protocols::antibody::design::AntibodyDesignProtocol, protocols::antibody::snugdock::SnugDockProtocol, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::cyclic_peptide::TryDisulfPermutations, protocols::dna::DnaInterfaceMinMover, protocols::generalized_kinematic_closure::GeneralizedKIC, protocols::moves::DsspMover, protocols::nonlocal::SheetTranslate, protocols::protein_interface_design::movers::LoopFinder, protocols::protein_interface_design::movers::MapHotspot, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::protein_interface_design::movers::RepackMinimize, protocols::simple_moves::MembraneTopology, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::anchored_design::AnchoredDesignMover, protocols::enzdes::AddOrRemoveMatchCsts, protocols::moves::RepeatMover, protocols::rosetta_scripts::AdditionalOutputWrapper, protocols::sewing::RepeatAssemblyMover, protocols::simple_moves::ScoreMover, protocols::ligand_docking::MinimizeBackbone, protocols::rigid::RollMover, protocols::simple_moves::SuperimposeMover, protocols::simple_moves::TaskAwareMinMover, protocols::contact_map::ContactMap, protocols::motifs::MotifDnaPacker, protocols::ncbb::SecStructMinimizeMover, protocols::protein_interface_design::movers::BackrubDDMover, protocols::rosetta_scripts::MultipleOutputWrapper, protocols::simple_moves::MissingDensityToJumpMover, protocols::toolbox::task_operations::StoreCompoundTaskMover, protocols::enzdes::BackboneSampler, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::ligand_docking::FinalMinimizer, protocols::simple_moves::ConstraintSetMover, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::helical_bundle::FitSimpleHelix, protocols::ligand_docking::SlideTogether, protocols::loophash::FastGapMover, protocols::matdes::ExtractSubposeMover, protocols::moves::CyclicMover, protocols::relax::AtomCoordinateCstMover, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::ResidueTypeConstraintMover, protocols::surface_docking::FullatomRelaxMover, protocols::medal::MedalMover, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::protein_interface_design::movers::SpinMover, protocols::relax::RelaxProtocolBase, protocols::simple_moves::RandomOmegaFlipMover, protocols::simple_moves::RandomTorsionMover, protocols::cyclic_peptide::FlipChiralityMover, protocols::hybridization::MRMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::ligand_docking::ComputeLigandRDF, protocols::loophash::LoopHashMoverWrapper, protocols::moves::IfMover, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::sewing::MonteCarloAssemblyMover, protocols::ligand_docking::GrowLigand, protocols::ligand_docking::InterfaceScoreCalculator, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::simple_moves::MSDMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::LigandDesign, protocols::moves::StructureRestrictor, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::NucleotideMutation, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::sewing::AppendAssemblyMover, protocols::simple_moves::PDBReloadMover, protocols::medal::MedalExchangeMover, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::LoopOver, protocols::seeded_abinitio::SeedFoldTree, protocols::seeded_abinitio::SegmentHybridizer, protocols::abinitio::DomainAssembly, protocols::protein_interface_design::movers::VLB, protocols::residue_selectors::StoreResidueSubsetMover, protocols::rosetta_scripts::SavePoseMover, protocols::seeded_abinitio::CloseFold, protocols::star::StarAbinitio, protocols::toolbox::task_operations::StoreCombinedStoredTasksMover, protocols::cyclic_peptide::PeptideCyclizeMover, protocols::ligand_docking::StartFrom, protocols::matdes::SchemePlaceMotifsMover, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::sewing::EnumerateAssemblyMover, protocols::sewing::GivenPathAssemblyMover, protocols::sewing::GreedyAssemblyMover, protocols::electron_density::ReportFSC, protocols::ligand_docking::Rotates, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::BuildAlaPose, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::RandomMutation, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::TopologyBrokerMover, protocols::simple_moves::DumpPdb, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::SequenceProfileMover, protocols::simple_moves::SwitchChainOrderMover, protocols::toolbox::task_operations::StoreTaskMover, protocols::cyclic_peptide::PeptideStubMover, protocols::electron_density::ScaleMapIntensities, protocols::moves::NullMover, protocols::seeded_abinitio::CAcstGenerator, protocols::simple_moves::CutChainMover, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::seeded_abinitio::GrowPeptides, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::LoadPDBMover, protocols::simple_moves::LoadUnboundRotMover, protocols::coupled_moves::CoupledMovesProtocol, protocols::protein_interface_design::movers::LoopLengthChange, protocols::seeded_abinitio::SwapSegment, protocols::sewing::AddStartnodeFragments, protocols::simple_moves::ChainSplitMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::PatchdockTransform, protocols::protein_interface_design::movers::SubroutineMover, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::AlignChainMover, protocols::simple_moves::FindConsensusSequence, protocols::simple_moves::AddJobPairData, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::ligand_docking::CompoundTranslate, protocols::loops::FoldTreeFromLoops, protocols::simple_moves::AddChainMover, protocols::simple_moves::ContingentAcceptMover, protocols::simple_moves::ResetBaselineMover, protocols::cyclic_peptide::CreateDistanceConstraint, protocols::qsar::scoring_grid::GridInitMover, protocols::simple_moves::PSSM2BfactorMover, protocols::cyclic_peptide::CreateAngleConstraint, protocols::cyclic_peptide::CreateTorsionConstraint, protocols::ligand_docking::RandomConformers, protocols::cyclic_peptide::DeclareBond, protocols::ligand_docking::WriteLigandMolFile, protocols::simple_moves::DeleteChainMover, protocols::simple_moves::VirtualRootMover, protocols::simple_moves::ClearConstraintsMover, and protocols::simple_moves::ResetFoldTree.
Referenced by create().
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virtual |
Mechanism by which a mover may return multiple output poses from a single input pose.
fpd
Mechanism by which a mover may return multiple output poses from a single input pose. After apply is called, calling this function will return subsequent output poses. NULL is returned if the mover has no more output poses remaining. The base class implementation returns NULL always; multi-output movers must override this. RosettaScripts uses this interface to produce a 'branched' protocol.
Reimplemented in protocols::hbnet::HBNet, protocols::motif_grafting::movers::MotifGraftMover, protocols::pose_length_moves::NearNativeLoopCloser, protocols::rosetta_scripts::ParsedProtocol, protocols::rosetta_scripts::MultiplePoseMover, protocols::rosetta_scripts::AdditionalOutputWrapper, protocols::rosetta_scripts::MultipleOutputWrapper, protocols::moves::IfMover, protocols::pose_length_moves::InsertResMover, protocols::simple_moves::MergePDBMover, and protocols::loophash::LoopHashMoverWrapper.
Referenced by protocols::simple_moves::GenericSimulatedAnnealer::apply().
jobdist::BasicJobCOP protocols::moves::Mover::get_current_job | ( | ) | const |
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inline |
A tag is a unique identifier used to identify structures produced by this Mover. get_current_tag() returns the tag, and set_current_tag( std::string tag ) sets the tag. This functionality is not intended for use with the 2008 job distributor.
References current_tag_.
Referenced by protocols::comparative_modeling::LoopRelaxThreadingMover::apply(), protocols::hybridization::MRMover::apply(), protocols::abinitio::AbrelaxMover::apply(), protocols::loops::loop_mover::IndependentLoopMover::apply(), protocols::abinitio::KinematicAbinitio::apply(), protocols::relax::ClassicRelax::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::abinitio::ConstraintFragmentSampler::apply(), protocols::relax::FastRelax::apply(), protocols::abinitio::FragmentSampler::apply(), protocols::abinitio::ClassicAbinitio::apply(), protocols::abinitio::abscript::AbscriptLoopCloserCM::attempt_ccd(), protocols::abinitio::MembraneAbinitio::checkpoint(), protocols::abinitio::FragmentSampler::checkpointed_cycle_block(), protocols::abinitio::FragmentSampler::do_stage3_cycles(), protocols::abinitio::ClassicAbinitio::do_stage3_cycles(), protocols::abinitio::FragmentSampler::do_stage4_cycles(), protocols::abinitio::ClassicAbinitio::do_stage4_cycles(), protocols::abinitio::KinematicAbinitio::dump_jump_log(), protocols::abinitio::AbrelaxApplication::fold(), protocols::loop_build::LoopMover_SlidingWindow::model_loop(), protocols::moves::operator<<(), protocols::abinitio::Protocol::output_debug_structure(), protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure::output_debug_structure(), protocols::relax::RelaxProtocolBase::output_debug_structure(), protocols::abinitio::MembraneAbinitio::output_debug_structure(), protocols::abinitio::ClassicAbinitio::output_debug_structure(), protocols::abinitio::MembraneAbinitio::recover_checkpoint(), protocols::loops::loop_closure::ccd::FASelectSlidingWindowLoopClosure::select_final_loop(), protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure::select_final_loop(), and show().
PoseCOP protocols::moves::Mover::get_input_pose | ( | ) | const |
References input_pose_.
Referenced by protocols::docking::stateless::SaneDockingProtocol::apply(), protocols::symmetric_docking::SymDockProtocol::apply(), protocols::antibody::GraftCDRLoopsProtocol::finalize_setup(), protocols::antibody::AntibodyModelerProtocol::finalize_setup(), protocols::docking::DockingProtocol::finalize_setup(), and protocols::docking::DockingHighResLegacy::set_dock_mcm_protocol().
MoverStatus protocols::moves::Mover::get_last_move_status | ( | ) | const |
end parser interface, start Job Distributor interface/////////////
returns status after an apply(). The job distributor (august 08 vintage) will check this function to see if your protocol wants to filter its results - if your protocol wants to say "that run was no good, skip it" then use the protected last_move_status(MoverStatus) to change the value that this function will return.
start Job Distributor interface//////////////////////////////////
used by job distributor to get status
References last_status_.
Referenced by protocols::loop_build::LoopBuildMover::apply(), protocols::protein_interface_design::movers::VLB::apply(), protocols::environment::EnvMover::apply(), protocols::abinitio::AbrelaxMover::apply(), protocols::generalized_kinematic_closure::GeneralizedKIC::apply(), protocols::protein_interface_design::movers::LoopRemodel::apply(), protocols::rosetta_scripts::ParsedProtocol::apply(), protocols::abinitio::KinematicAbinitio::apply(), protocols::moves::RandomMover::apply(), protocols::abinitio::JumpingFoldConstraintsWrapper::apply(), protocols::moves::CycleMover::apply(), protocols::forge::components::VarLengthBuild::apply(), protocols::simple_moves::GenericSimulatedAnnealer::apply_mover(), protocols::protein_interface_design::movers::PlaceStubMover::final_cleanup(), protocols::abinitio::AbrelaxApplication::fold(), and protocols::protein_interface_design::movers::PlaceOnLoop::minimize_toward_stub().
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pure virtual |
Each derived class must specify its name. The class name.
Implemented in protocols::rigid::RigidBodyDofSeqPerturbMover, protocols::rigid::RigidBodyDofPerturbMover, protocols::rigid::RigidBodyDofRandomTransMover, protocols::rigid::RigidBodyDofSeqTransMover, protocols::rigid::RigidBodyDofTransMover, protocols::rigid::RigidBodyDofSeqRandomizeMover, protocols::rigid::RigidBodyDofRandomizeMover, protocols::rigid::UniformSphereTransMover, protocols::forge::remodel::RemodelMover, protocols::hbnet::HBNet, protocols::rigid::RigidBodyTransMover, protocols::frags::TorsionFragmentMover, protocols::generalized_kinematic_closure::GeneralizedKIC, protocols::forge::components::VarLengthBuild, protocols::analysis::InterfaceAnalyzerMover, protocols::rigid::RigidBodyTiltMover, protocols::rbsegment_relax::StrandTwistingMover, protocols::helical_bundle::MakeBundle, protocols::motif_grafting::movers::MotifGraftMover, protocols::moves::PyMOLMover, protocols::helical_bundle::BundleGridSampler, protocols::rigid::RigidBodyDeterministicSpinMover, protocols::forge::remodel::RemodelLoopMover, protocols::backrub::BackrubMover, protocols::helical_bundle::MakeBundleHelix, protocols::rigid::RigidBodySpinMover, protocols::rbsegment_relax::GaussianRBSegmentMover, protocols::simple_moves::ShearMover, protocols::simple_moves::GenericMonteCarloMover, protocols::membrane::TranslationRotationMover, protocols::denovo_design::movers::SetPoseSecstructFromStructureDataMover, protocols::cluster::AssignToClustersMover, protocols::rigid::RigidBodyRandomizeMover, protocols::flxbb::FlxbbDesignPack, protocols::forge::components::BDR, protocols::helical_bundle::PerturbBundle, protocols::rbsegment_relax::SequenceShiftMover, protocols::simple_moves::LoggedFragmentMover, protocols::cryst::SetRefinementOptionsMover, protocols::cryst::MakeLatticeMover, protocols::cluster::ClusterPhilStyle_PoseReporter, protocols::electron_density::DockIntoDensityMover, protocols::simple_moves::SmallMover, protocols::enzdes::UpdateEnzdesHeaderMover, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::cluster::ClusterPhilStyle_Loop, protocols::helical_bundle::BackboneGridSampler, protocols::anchored_design::AnchoredRefineMover, protocols::cryst::TagPoseWithRefinementStatsMover, protocols::docking::SlideIntoContact, protocols::loop_modeling::LoopProtocol, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::LoopRefine, protocols::cluster::ClusterPhilStyle, protocols::loops::loop_closure::ccd::CCDLoopClosureMover, protocols::fldsgn::BluePrintBDR, protocols::moves::CycleMover, protocols::cryst::UpdateSolventMover, protocols::antibody::design::AntibodyDesignMover, protocols::enzdes::RepackLigandSiteWithoutLigandMover, protocols::features::ReportToDB, protocols::membrane::RotationMover, protocols::forge::remodel::ResidueVicinityRCG, protocols::denovo_design::DisulfidizeMover, protocols::simple_moves::BBG8T3AMover, protocols::docking::DockingProtocol, protocols::antibody_legacy::LoopRlxMover, protocols::membrane::SetMembraneCenterMover, protocols::simple_moves::GreenPacker, protocols::docking::FaDockingSlideIntoContact, protocols::backrub::BackrubSidechainMover, protocols::rigid::RigidBodyPerturbRandomJumpMover, protocols::canonical_sampling::FixedTemperatureController, protocols::canonical_sampling::MetricRecorder, protocols::flxbb::FlxbbDesign, protocols::comparative_modeling::LoopRelaxMover, protocols::rbsegment_relax::HelicalGaussianMover, protocols::abinitio::JumpingFoldConstraintsWrapper, protocols::grafting::AnchoredGraftMover, protocols::cryst::FitBfactorsMover, protocols::cluster::ClusterBase, protocols::moves::RandomMover, protocols::enzdes::DiversifyStoredRBConfs, protocols::antibody::AntibodyCDRGrafter, protocols::farna::ErraserMinimizerMover, protocols::anchored_design::AnchoredPerturbMover, protocols::docking::DockingSlideIntoContact, protocols::enzdes::PredesignPerturbMover, protocols::simple_moves::EnergyCutRotamerTrialsMinMover, protocols::simple_moves::EnergyCutRotamerTrialsMover, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::moves::RampingMover, protocols::rigid::RigidBodyPerturbMover, protocols::carbohydrates::SimpleGlycosylateMover, protocols::cryst::DockLatticeMover, protocols::forge::remodel::GenericRemodelConstraintGenerator, protocols::helical_bundle::FitSimpleHelix, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::membrane::AddMembraneMover, protocols::cryst::MakeLayerMover, protocols::symmetric_docking::SymDockProtocol, protocols::cryst::LoadDensityMapMover, protocols::antibody_legacy::CloseOneMover, protocols::carbohydrates::LinkageConformerMover, protocols::enzdes::MinimizeStoredRBConfs, protocols::abinitio::ClassicAbinitio, protocols::canonical_sampling::HamiltonianExchange, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::moves::SequenceMover, protocols::sewing::AssemblyConstraintsMover, protocols::membrane::SetMembraneNormalMover, protocols::simple_moves::ClassicFragmentMover, protocols::abinitio::MembraneAbinitio, protocols::relax::FastRelax, protocols::hybridization::FoldTreeHybridize, protocols::moves::TrialMover, protocols::denovo_design::movers::BuildDeNovoBackboneMover, protocols::fldsgn::CircularPermutation, protocols::carbohydrates::GlycanRelaxMover, protocols::enzdes::ApplyRandomStoredRBConf, protocols::simple_moves::GenericSimulatedAnnealer, protocols::abinitio::FragmentSampler, protocols::antibody::constraints::CDRDihedralConstraintMover, protocols::loop_modeling::LoopModeler, protocols::canonical_sampling::ParallelTempering, protocols::hybridization::HybridizeProtocol, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::membrane::symmetry::SymmetricAddMembraneMover, protocols::simple_moves::bin_transitions::PerturbByBins, protocols::cryst::RecomputeDensityMapMover, protocols::matdes::MatDesGreedyOptMutationMover, protocols::rosetta_scripts::ParsedProtocol, protocols::simple_moves::SetTorsion, protocols::simple_moves::CoupledMover, protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover, protocols::ligand_docking::LigandDockMain, protocols::simple_moves::ChangeAndResetFoldTreeMover, protocols::pose_length_moves::NearNativeLoopCloser, protocols::simple_moves::symmetry::SetupNCSMover, protocols::antibody_legacy::GraftOneMover, protocols::canonical_sampling::SimulatedTempering, protocols::docking::membrane::MPDockingMover, protocols::cluster::EnsembleConstraints_Simple, protocols::membrane::RandomPositionTranslationMover, protocols::simple_moves::UniformTranslationMover, protocols::docking::DockingInitialPerturbation, protocols::idealize::IdealizeMover, protocols::loop_modeling::LoopMover, protocols::membrane::TransformIntoMembraneMover, protocols::simple_moves::MinPackMover, protocols::membrane::FlipMover, protocols::membrane::TranslationMover, protocols::normalmode::NormalModeRelaxMover, protocols::simple_moves::BBGaussianMover, protocols::denovo_design::movers::BridgeChainsMover, protocols::farna::RNAThreadAndMinimizeMover, protocols::simple_moves::EvolutionaryDynamicsMover, protocols::antibody::constraints::ParatopeEpitopeSiteConstraintMover, protocols::helical_bundle::PerturbBundleHelix, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::simple_moves::MinMover, protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover, protocols::dna::DnaInterfacePacker, protocols::enzdes::GenerateStoredRBConfs, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::simple_moves::BoltzmannRotamerMover, protocols::antibody::design::AntibodyDesignProtocol, protocols::grafting::CCDEndsGraftMover, protocols::simple_moves::MutateResidue, protocols::simple_moves::symmetry::FaSymDockingSlideTogether, protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSampler, protocols::contact_map::ContactMap, protocols::recces::sampler::rna::MC_RNA_Suite, protocols::recces::scratch::ThermalSamplingMover, protocols::sewing::RepeatAssemblyMover, protocols::simple_moves::CopyRotamerMover, protocols::backrub::BackrubProtocol, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD, protocols::ncbb::SecStructMinimizeMover, protocols::abinitio::ConstraintFragmentSampler, protocols::design_opt::GreedyOptMutationMover, protocols::nonlocal::SingleFragmentMover, protocols::protein_interface_design::movers::PlaceStubMover, protocols::comparative_modeling::ThreadingMover, protocols::kinematic_closure::KicMover, protocols::simple_moves::PeriodicBoxMover, protocols::forge::constraints::InverseRotamersRCG, protocols::loop_build::LoopMover_SlidingWindow, protocols::md::CartesianMD, protocols::cluster::EnsembleConstraints, protocols::membrane::visualize::VisualizeMembraneMover, protocols::denovo_design::movers::FastDesign, protocols::docking::DockingHighResLegacy, protocols::simple_moves::SimpleThreadingMover, protocols::hbnet::HBNetStapleInterface, protocols::loop_modeling::LoopBuilder, protocols::recces::scratch::ThermalMinimizer, protocols::sewing::MonteCarloAssemblyMover, protocols::simple_moves::sidechain_moves::SidechainMoverBase, protocols::docking::DockingHighRes, protocols::simple_moves::DeleteChainsMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::symmetric_docking::membrane::MPSymDockMover, protocols::abinitio::FoldConstraints, protocols::docking::TemperedDocking, protocols::loophash::LoopHashDiversifier, protocols::match::MatcherMover, protocols::membrane::AddMPLigandMover, protocols::simple_moves::RotamerTrialsMover, protocols::antibody::constraints::ParatopeSiteConstraintMover, protocols::simple_moves::bin_transitions::InitializeByBins, protocols::simple_moves::PackRotamersMover, protocols::simple_moves::SmoothSymmetricFragmentMover, protocols::cryst::UpdateCrystInfo, protocols::ddg::ddGMover, protocols::ncbb::oop::OopCreatorMover, protocols::cyclic_peptide::TryDisulfPermutations, protocols::ligand_docking::HighResEnsemble, protocols::loops::loop_mover::refine::LoopMover_Refine_KIC, protocols::moves::MCShowMover, protocols::relax::membrane::MPFastRelaxMover, protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover, protocols::simple_moves::StorePoseSnapshot, protocols::antibody::AntibodyNumberingConverterMover, protocols::electron_density::BfactorFittingMover, protocols::flxbb::InterlockAroma, protocols::forge::remodel::RemodelDesignMover, protocols::hybridization::CartesianSampler, protocols::ligand_docking::TransformEnsemble, protocols::membrane::TiltMover, protocols::antibody::GraftCDRLoopsProtocol, protocols::features::TrajectoryReportToDB, protocols::hybridization::BackboneTorsionPerturbation, protocols::hybridization::BackboneTorsionSampler, protocols::membrane::SetMembranePositionMover, protocols::membrane::SpinAroundPartnerMover, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::docking::membrane::MPDockingSetupMover, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::membrane::MPQuickRelaxMover, protocols::relax::RangeRelaxMover, protocols::simple_moves::RingConformationMover, protocols::abinitio::Protocol, protocols::docking::DockMCMProtocol, protocols::docking::InterfaceSidechainMinMover, protocols::enzdes::EnzRepackMinimize, protocols::membrane::MembranePositionFromTopologyMover, protocols::simple_moves::ConsensusDesignMover, protocols::hybridization::CartesianHybridize, protocols::ligand_docking::LigandBaseProtocol, protocols::simple_moves::DisulfideInsertionMover, protocols::antibody_legacy::CDRH3Modeler, protocols::cryst::SetCrystWeightMover, protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover, protocols::protein_interface_design::movers::TryRotamers, protocols::abinitio::LoopJumpFoldCst, protocols::forge::constraints::InvrotTreeRCG, protocols::moves::FilterReportAsPoseExtraScoresMover, protocols::rbsegment_relax::CCDMoveWrapper, protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover, protocols::abinitio::abscript::AbscriptMover, protocols::analysis::LoopAnalyzerMover, protocols::docking::DockMCMCycle, protocols::docking::DockSetupMover, protocols::membrane::MPLipidAccessibility, protocols::simple_moves::ReportEffectivePKA, protocols::symmetric_docking::SymInterfaceSidechainMinMover, protocols::backbone_moves::local_backbone_mover::LocalBackboneMover, protocols::farna::RNAIdealizeMover, protocols::ligand_docking::StartFrom, protocols::recces::sampler::MC_OneTorsion, protocols::rigid::WholeBodyRotationMover, protocols::simple_moves::CstInfoMover, protocols::symmetric_docking::SymDockingHiRes, protocols::antibody::snugdock::SnugDock, protocols::comparative_modeling::MultiThreadingMover, protocols::cyclic_peptide::ThreefoldLinkerMover, protocols::docking::membrane::MPFindInterfaceMover, protocols::grafting::simple_movers::KeepRegionMover, protocols::moves::MonteCarloUtil, protocols::simple_moves::symmetry::SymDockingSlideIntoContact, protocols::stepwise::sampler::rna::RNA_SuiteStepWiseSampler, protocols::stepwise::sampler::StepWiseSamplerSizedComb, protocols::aa_composition::AddCompositionConstraintMover, protocols::denovo_design::movers::AlignResiduesMover, protocols::ligand_docking::Rotate, protocols::membrane::OptimizeMembranePositionMover, protocols::ncbb::oop::OopDockDesignProtocol, protocols::cyclic_peptide::SymmetricCycpepAlign, protocols::denovo_design::movers::ExtendChainMover, protocols::forge::remodel::RemodelGlobalFrame, protocols::membrane::visualize::VisualizeEmbeddingMover, protocols::ncbb::NcbbDockDesignProtocol, protocols::relax::ClassicRelax, protocols::relax::LocalRelax, protocols::rigid::RigidBodyMover, protocols::simple_moves::MonteCarloTest, protocols::simple_moves::MSDMover, protocols::aa_composition::AddHelixSequenceConstraintsMover, protocols::abinitio::abscript::RigidChunkCM, protocols::abinitio::KinematicAbinitio, protocols::canonical_sampling::TrialCounterObserver, protocols::cyclic_peptide::PeptideStubMover, protocols::docking::DockingLowRes, protocols::membrane::benchmark::SampleTiltAngles, protocols::relax::membrane::MPRangeRelaxMover, protocols::simple_moves::MonteCarloRecover, protocols::abinitio::abscript::ConstraintPreparer, protocols::docking::membrane::QuickRelaxPartnersSeparately, protocols::forge::remodel::RemodelAccumulator, protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD, protocols::simple_moves::MonteCarloReset, protocols::simple_moves::ScoreMover, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::ligand_docking::Transform, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::moves::ProfilerMover, protocols::protein_interface_design::movers::DisulfideMover, protocols::recces::sampler::rna::MC_RNA_KIC_Sampler, protocols::rigid::UniformRigidBodyCM, protocols::simple_moves::ExtendedPoseMover, protocols::antibody::RefineOneCDRLoop, protocols::canonical_sampling::TemperatureController, protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure, protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC, protocols::matdes::SymDofMover, protocols::simple_moves::BBDihedralSamplerMover, protocols::simple_moves::ddG, protocols::simple_moves::ShortBackrubMover, protocols::antibody_legacy::GraftMover, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::ligand_docking::HighResDocker, protocols::membrane::MPMutateRelaxMover, protocols::simple_moves::SmoothFragmentMover, protocols::antibody::H3RefineCCD, protocols::environment::CoMTrackerCM, protocols::fldsgn::MatchResiduesMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::moves::IteratedConvergenceMover, protocols::normalmode::NormalModeMinimizer, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::relax::AtomCoordinateCstMover, protocols::sewing::AppendAssemblyMover, protocols::simple_moves::ConvertRealToVirtualMover, protocols::stepwise::sampler::rna::RNA_ChiStepWiseSampler, protocols::toolbox::task_operations::StoreCompoundTaskMover, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::abinitio::DoubleLayerKinematicAbinitio, protocols::carbohydrates::GlycanTreeMinMover, protocols::ligand_docking::Translate, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::rigid::UniformRigidBodyMover, protocols::simple_moves::ConvertVirtualToRealMover, protocols::simple_moves::symmetry::SymMinMover, protocols::canonical_sampling::CanonicalSamplingMover, protocols::denovo_design::movers::AddSegmentDataMover, protocols::denovo_design::movers::MakeAsymmetricStructureDataMover, protocols::docking::ConformerSwitchMover, protocols::simple_moves::ShakeStructureMover, protocols::simple_moves::TaskAwareMinMover, protocols::stepwise::sampler::StepWiseSamplerOneValue, protocols::denovo_design::movers::SetResidueAliasMover, protocols::grafting::simple_movers::ReplaceRegionMover, protocols::hotspot_hashing::movers::PlaceSurfaceProbe, protocols::loophash::LoopHashLibrary, protocols::stepwise::sampler::rna::RNA_SugarStepWiseSampler, protocols::abinitio::abscript::FragmentJumpCM, protocols::abinitio::KinematicTaskControl, protocols::docking::DockMinMover, protocols::membrane::OptimizeProteinEmbeddingMover, protocols::rigid::WholeBodyTranslationMover, protocols::simple_moves::PertMinMover, protocols::simple_moves::Tumble, protocols::abinitio::abscript::AbscriptLoopCloserCM, protocols::abinitio::abscript::FragmentCM, protocols::enzdes::AddOrRemoveMatchCsts, protocols::loops::loop_closure::ccd::WidthFirstSlidingWindowLoopClosure, protocols::struct_fragment::StructFragmentMover, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::constraint_generator::RemoveConstraints, protocols::hybridization::DomainAssembly, protocols::loops::loop_closure::ccd::FASelectSlidingWindowLoopClosure, protocols::loops::loop_mover::refine::RepackTrial, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::simple_moves::symmetry::SymRotamerTrialsMover, protocols::antibody::LHRepulsiveRampLegacy, protocols::forge::constraints::RemoveRemodelCsts, protocols::loop_modeling::refiners::RepackingRefiner, protocols::loops::loop_mover::LoopMover, protocols::membrane::RandomPositionRotationMover, protocols::simple_moves::BackboneMover, protocols::surface_docking::SurfaceDockingProtocol, protocols::denovo_design::movers::FoldTreeFromFoldGraphMover, protocols::electron_density::VoxelSpacingRefinementMover, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::grafting::GraftMoverBase, protocols::grafting::simple_movers::InsertPoseIntoPoseMover, protocols::hybridization::ChunkTrialMover, protocols::kinematic_closure::BalancedKicMover, protocols::loop_modeling::refiners::MinimizationRefiner, protocols::loophash::LoopHashMoverWrapper, protocols::protein_interface_design::movers::LoopRemodel, protocols::rosetta_scripts::MultiplePoseMover, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::stepwise::modeler::StepWiseConnectionSampler, protocols::aa_composition::ClearCompositionConstraintsMover, protocols::constraint_generator::AddConstraints, protocols::environment::ScriptCM, protocols::loop_modeling::utilities::PrepareForFullatom, protocols::seeded_abinitio::SeedFoldTree, protocols::stepwise::sampler::rna::RNA_KIC_Sampler, protocols::abinitio::abscript::StructPerturberCM, protocols::antibody::design::MutateFrameworkForCluster, protocols::grafting::simple_movers::DeleteRegionMover, protocols::ligand_docking::LigandDockProtocol, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::symmetric_docking::SymFoldandDockRbTrialMover, protocols::toolbox::SamplerPlusPlus, protocols::membrane::benchmark::MakeCanonicalHelix, protocols::rbsegment_relax::RBSegmentMover, protocols::simple_moves::FindConsensusSequence, protocols::simple_moves::UniformRotationMover, protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerWithResidueList, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::simple_moves::symmetry::TaskAwareSymMinMover, protocols::comparative_modeling::ExtraThreadingMover, protocols::forge::constraints::NtoCConstraintGenerator, protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::MembraneTopology, protocols::simple_moves::RotamerizeMover, protocols::simple_moves::WobbleMover, protocols::canonical_sampling::DbTrajectoryRecorder, protocols::canonical_sampling::TemperingBase, protocols::forge::remodel::RemodelLigandHandler, protocols::hybridization::InsertChunkMover, protocols::LoopRebuild, protocols::pose_length_moves::ConnectChainsMover, protocols::protein_interface_design::movers::DockWithHotspotMover, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::rigid::RollMover, protocols::simple_moves::MergePDBMover, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerWithResidueAlternatives, protocols::enzymatic_movers::GlycosyltransferaseMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycle, protocols::nonlocal::BiasedFragmentMover, protocols::simple_filters::EvaluatedTrialMover, protocols::simple_moves::SymmetricFragmentMover, protocols::stepwise::sampler::StepWiseSamplerSizedAny, protocols::dna::DnaInterfaceMultiStateDesign, protocols::docking::SidechainMinMover, protocols::flexpep_docking::FlexPepDockingAbInitio, protocols::floppy_tail::FloppyTailMover, protocols::loops::loop_closure::kinematic_closure::KinematicMover, protocols::noesy_assign::DistanceScoreMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::protein_interface_design::movers::NucleotideMutation, protocols::sewing::GivenPathAssemblyMover, protocols::sewing::GreedyAssemblyMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::oop::OopDPuckMinusMover, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::simple_moves::symmetry::SymDockingInitialPerturbation, protocols::stepwise::sampler::StepWiseSamplerOneTorsion, protocols::docking::DockingPrepackProtocol, protocols::ligand_docking::MinimizeBackbone, protocols::moves::DsspMover, protocols::moves::IfMover, protocols::recces::sampler::rna::MC_RNA_Sugar, protocols::rigid::MembraneNormalPerturbationMover, protocols::rigid::RigidBodyMotionMover, protocols::stepwise::sampler::copy_dofs::ResidueAlternativeStepWiseSampler, protocols::ligand_docking::InterfaceScoreCalculator, protocols::loops::loop_mover::LoopCM, protocols::moves::FilterReporterMover, protocols::simple_moves::ConstrainToIdealMover, protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup, protocols::stepwise::sampler::rna::RNA_NucleosideStepWiseSampler, protocols::surface_docking::CentroidRelaxMover, protocols::canonical_sampling::TrajectoryRecorder, protocols::denovo_design::movers::RotateSegmentMover, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::SeparateDnaFromNonDna, protocols::flexpep_docking::FlexPepDockingLowRes, protocols::ligand_docking::FinalMinimizer, protocols::moves::JumpOutMover, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::rosetta_scripts::MultipleOutputWrapper, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::DME_FilterMover, protocols::simple_moves::ReturnSidechainMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::stepwise::sampler::StepWiseSamplerComb, protocols::antibody::LHRepulsiveRamp, protocols::antibody_legacy::AntibodyModeler, protocols::farna::movers::RNA_FragmentMover, protocols::ligand_docking::SlideTogether, protocols::ligand_docking::UnconstrainedTorsionsMover, protocols::loops::loop_closure::kinematic_closure::KinematicWrapper, protocols::membrane::HelixFromSequence, protocols::moves::ChangeFoldTreeMover, protocols::protein_interface_design::movers::LoopFinder, protocols::protein_interface_design::movers::MapHotspot, protocols::qsar::RenderGridsToKinemage, protocols::rbsegment_relax::OptimizeThreadingMover, protocols::simple_moves::AddChainMover, protocols::simple_moves::SaneMinMover, protocols::toolbox::match_enzdes_util::AlignPoseToInvrotTreeMover, protocols::cyclic_peptide::PeptideCyclizeMover, protocols::dna::DnaInterfaceMinMover, protocols::environment::EnvMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_Moves, protocols::md::MDBase, protocols::rbsegment_relax::FragInsertAndAlignMover, protocols::abinitio::abscript::AbscriptStageMover, protocols::antibody::H3PerturbCCD, protocols::antibody::RefineOneCDRLoopCentroid, protocols::cryst::ReportGradientsMover, protocols::denovo_design::movers::SealFoldTreeMover, protocols::loop_modeling::refiners::RotamerTrialsRefiner, protocols::matdes::ExtractSubposeMover, protocols::protein_interface_design::movers::RepackMinimize, protocols::rosetta_scripts::AdditionalOutputWrapper, protocols::sewing::EnumerateAssemblyMover, protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler, protocols::symmetric_docking::SymDockingLowRes, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::docking::DockingEnsemblePrepackProtocol, protocols::enzdes::BackboneSampler, protocols::enzymatic_movers::EnzymaticMover, protocols::ligand_docking::ComputeLigandRDF, protocols::motifs::MotifDnaPacker, protocols::moves::PDBDumpMover, protocols::ncbb::SecStructFinder, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::rbsegment_relax::RBSegmentRelax, protocols::simple_moves::ContingentAcceptMover, protocols::simple_moves::RepackSidechainsMover, protocols::simple_moves::StructProfileMover, protocols::cyclic_peptide::FlipChiralityMover, protocols::docking::EllipsoidalRandomizationMover, protocols::farna::RNA_FragmentMonteCarlo, protocols::ligand_docking::GrowLigand, protocols::protein_interface_design::movers::SetAtomTree, protocols::recces::sampler::MC_Sampler, protocols::seeded_abinitio::SegmentHybridizer, protocols::sewing::AddStartnodeFragments, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::rational_mc::RationalMonteCarlo, protocols::simple_moves::TorsionDOFMover, protocols::stepwise::modeler::rna::phosphate::MultiPhosphateSampler, protocols::stepwise::sampler::input_streams::InputStreamStepWiseSampler, protocols::symmetric_docking::SymSidechainMinMover, protocols::antibody::ModelCDRH3, protocols::electron_density::SetupForDensityScoringMover, protocols::farna::movers::RNA_Relaxer, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::LigandDesign, protocols::loophash::FastGapMover, protocols::loophash::Mover_LoopHashRefine, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::simple_moves::AddCavitiesMover, protocols::simple_moves::SwitchChainOrderMover, protocols::stepwise::modeler::StepWiseMinimizer, protocols::stepwise::modeler::StepWiseModeler, protocols::stepwise::monte_carlo::mover::AddOrDeleteMover, protocols::surface_docking::FullatomRelaxMover, protocols::antibody::LHSnugFitLegacy, protocols::farna::RNA_DeNovoProtocol, protocols::pose_length_moves::AnalyzeLoopModeling, protocols::pose_length_moves::InsertResMover, protocols::protein_interface_design::movers::BackrubDDMover, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::simple_moves::AlignChainMover, protocols::simple_moves::ResidueTypeConstraintMover, protocols::simple_moves::SuperimposeMover, protocols::stepwise::legacy::modeler::rna::StepWiseRNA_PoseSetup, protocols::stepwise::monte_carlo::mover::AddMover, protocols::symmetric_docking::SymFoldandDockSlideTrialMover, protocols::abinitio::DomainAssembly, protocols::antibody::CDRsMinPackMin, protocols::farna::MultipleDomainMover, protocols::enzdes::EnzdesFlexBBProtocol, protocols::ligand_docking::Rotates, protocols::moves::FilterMover, protocols::residue_selectors::StoreResidueSubsetMover, protocols::simple_moves::LoadPDBMover, protocols::simple_moves::oop::OopDPuckPlusMover, protocols::stepwise::monte_carlo::mover::DeleteMover, protocols::stepwise::sampler::StepWiseSamplerSized, protocols::toolbox::task_operations::StoreCombinedStoredTasksMover, protocols::abinitio::AbrelaxMover, protocols::loops::loop_mover::IndependentLoopMover, protocols::protein_interface_design::movers::LoopLengthChange, protocols::relax::CentroidRelax, protocols::seeded_abinitio::GrowPeptides, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_Closer, protocols::stepwise::monte_carlo::mover::StepWiseMasterMover, protocols::stepwise::monte_carlo::rna::RNA_AddDeleteMonteCarlo, protocols::stepwise::sampler::copy_dofs::CopyDofStepWiseSampler, protocols::antibody::AntibodyModelerProtocol, protocols::antibody::snugdock::SnugDockProtocol, protocols::enzdes::ModifyStoredRBConfs, protocols::fldsgn::SheetRemodelConstraintGenerator, protocols::flexpack::FlexPacker, protocols::loophash::LoopHashRelaxProtocol, protocols::matdes::SchemePlaceMotifsMover, protocols::moves::WhileMover, protocols::protein_interface_design::movers::SpinMover, protocols::rbsegment_relax::IdealizeHelicesMover, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::chiral::ChiralMover, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::RandomOmegaFlipMover, protocols::simple_moves::RandomTorsionMover, protocols::stepwise::modeler::rna::sugar::VirtualSugarSampler, protocols::stepwise::sampler::copy_dofs::ResidueAlternativeStepWiseSamplerComb, protocols::toolbox::task_operations::StoreTaskMover, protocols::antibody::RefineBetaBarrel, protocols::enzdes::SecondaryMatchProtocol, protocols::fibril::SetupForFibrilMover, protocols::indel::IndelOptimizationMover, protocols::loops::FoldTreeFromLoops, protocols::moves::RepeatMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::RandomMutation, protocols::seeded_abinitio::CloseFold, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover, protocols::simple_moves::FragmentMover, protocols::simple_moves::PSSM2BfactorMover, protocols::simple_moves::symmetry::SymShakeStructureMover, protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler, protocols::stepwise::monte_carlo::mover::VaryLoopLengthMover, protocols::stepwise::sampler::jump::JumpStepWiseSampler, protocols::stepwise::sampler::rna::RNA_KinematicCloser, protocols::comparative_modeling::PartialThreadingMover, protocols::cyclic_peptide::CreateTorsionConstraint, protocols::farna::movers::RNA_Minimizer, protocols::nonlocal::HelixRotate, protocols::pose_length_moves::FixAllLoopsMover, protocols::protein_interface_design::movers::LoopOver, protocols::seeded_abinitio::CAcstGenerator, protocols::simple_moves::LoadUnboundRotMover, protocols::stepwise::modeler::rna::o2prime::O2PrimePacker, protocols::stepwise::modeler::rna::phosphate::PhosphateMover, protocols::symmetric_docking::SymFoldandDockMoveRbJumpMover, protocols::anchored_design::AnchoredDesignMover, protocols::antibody::GraftedStemOptimizer, protocols::antibody::H3CterInsert, protocols::cluster::GatherPosesMover, protocols::hybridization::WeightedFragmentSmoothTrialMover, protocols::loop_build::LoopmodelWrapper, protocols::magnesium::MgWaterHydrogenPacker, protocols::nonlocal::SheetTranslate, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::rigid::MembraneCenterPerturbationMover, protocols::seeded_abinitio::SwapSegment, protocols::simple_moves::MissingDensityToJumpMover, protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer, protocols::stepwise::sampler::protein::ProteinFragmentStepWiseSampler, protocols::cyclic_peptide::CreateDistanceConstraint, protocols::farna::movers::RNA_LoopCloser, protocols::features::InterfaceDdGMover, protocols::metal_interface::ZincHeterodimerMover, protocols::moves::StructureRestrictor, protocols::protein_interface_design::movers::PrepackMover, protocols::simple_moves::DeleteChainMover, protocols::simple_moves::ForceDisulfidesMover, protocols::stepwise::monte_carlo::rna::RNA_O2PrimeMover, protocols::stepwise::sampler::protein::ProteinMainChainStepWiseSampler, protocols::canonical_sampling::ProgressBarObserver, protocols::cyclic_peptide::DeclareBond, protocols::ligand_docking::CompoundTranslate, protocols::magnesium::MgHydrater, protocols::magnesium::MgMonteCarlo, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::rbsegment_relax::MakeStarTopologyMover, protocols::rigid::RotateJumpAxisMover, protocols::seeded_abinitio::CoordinateCst, protocols::simple_moves::CyclizationMover, protocols::simple_moves::DumpPdb, protocols::simple_moves::PDBReloadMover, protocols::simple_moves::symmetry::SymmetricRMSMover, protocols::stepwise::legacy::modeler::rna::RNA_AnalyticLoopCloser, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinKIC_LoopBridger, protocols::stepwise::monte_carlo::mover::FromScratchMover, protocols::stepwise::monte_carlo::mover::ResampleMover, protocols::stepwise::sampler::copy_dofs::ResidueListStepWiseSampler, protocols::abinitio::ResolutionSwitcher, protocols::electron_density::ReportFSC, protocols::loop_modeling::samplers::LegacyKicSampler, protocols::make_rot_lib::MakeRotLibMover, protocols::medal::MedalExchangeMover, protocols::medal::MedalMover, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::protein_interface_design::movers::VLB, protocols::sewing::AssemblyMover, protocols::simple_moves::RepeatPropagationMover, protocols::simple_moves::SequenceProfileMover, protocols::simple_moves::VirtualRootMover, protocols::stepwise::modeler::packer::SideChainCopier, protocols::stepwise::modeler::packer::StepWisePacker, protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_MultiPoseCloser, protocols::stepwise::sampler::StepWiseSamplerOneValueComb, protocols::topology_broker::RigidBodyRandomTMHMover, protocols::electron_density::ScaleMapIntensities, protocols::enzdes::EnzdesFixBBProtocol, protocols::hybridization::MRMover, protocols::ligand_docking::RandomConformers, protocols::ligand_docking::TetherLigand, protocols::protein_interface_design::movers::BuildAlaPose, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::SubroutineMover, protocols::protein_interface_design::movers::TopologyBrokerMover, protocols::qsar::scoring_grid::GridInitMover, protocols::recces::RECCES_Mover, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::AddJobPairData, protocols::simple_moves::BBConRotMover, protocols::simple_moves::RepulsiveOnlyMover, protocols::simple_moves::ResetBaselineMover, protocols::simple_moves::symmetry::DetectSymmetry, protocols::simple_moves::TailsScoreMover, protocols::star::StarAbinitio, protocols::stepwise::monte_carlo::StepWiseMonteCarlo, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::ligand_docking::MinimizeLigand, protocols::moves::CyclicMover, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::stepwise::modeler::polar_hydrogens::PolarHydrogenPacker, protocols::stepwise::modeler::precomputed::PrecomputedLibraryMover, protocols::stepwise::modeler::rna::checker::RNA_ChainClosureChecker, protocols::stepwise::modeler::rna::sugar::VirtualSugarJustInTimeInstantiator, protocols::surface_docking::SurfaceOrientMover, protocols::antibody::GraftOneCDRLoop, protocols::ub_e2c::ubi_e2c_modeler, protocols::ligand_docking::AddHydrogen, protocols::ligand_docking::WriteLigandMolFile, protocols::protein_interface_design::movers::PatchdockTransform, protocols::simple_moves::CombinePoseMover, protocols::simple_moves::oop::OopPuckMinusMover, protocols::simple_moves::oop::OopRandomSmallMover, protocols::simple_moves::SetReturningPackRotamersMover, protocols::simple_moves::TorsionSetMover, protocols::simple_moves::triazolamer::TriazolamerRandomSmallMover, protocols::stepwise::monte_carlo::rna::RNA_TorsionMover, protocols::domain_assembly::AssembleLinkerMover, protocols::ligand_docking::RigidSearchMover, protocols::loop_modeling::utilities::AcceptanceCheck, protocols::loop_modeling::utilities::LoopMoverGroup, protocols::stepwise::modeler::rna::sugar::VirtualSugarSamplerFromStringList, protocols::farna::FARNA_Optimizer, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::qsar::qsarMover, protocols::simple_moves::a3b_hbs::A3BHbsPatcher, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockMoveRbJumpMover, protocols::simple_moves::CopyDofMover, protocols::simple_moves::oop::OopRandomPuckMover, protocols::simple_moves::ProlineFixMover, protocols::comparative_modeling::StealLigandMover, protocols::enzdes::EnzdesBaseProtocol, protocols::magnesium::MgMinimizer, protocols::rosetta_scripts::SavePoseMover, protocols::simple_moves::PeptideStapleMover, protocols::stepwise::modeler::rna::bulge::BulgeUnApplyMover, protocols::stepwise::setup::StepWiseJobDistributor, protocols::symmetric_docking::SymDockBaseProtocol, protocols::cyclic_peptide::CreateAngleConstraint, protocols::magnesium::MgScanner, protocols::moves::CompositionMover, protocols::simple_moves::FavorSymmetricSequence, protocols::stepwise::modeler::rna::bulge::BulgeApplyMover, protocols::stepwise::setup::StepWiseMonteCarloJobDistributor, protocols::analysis::PackStatMover, protocols::antibody::CloseOneCDRLoop, protocols::comparative_modeling::LoopRelaxThreadingMover, protocols::domain_assembly::PostDockAssemblyScorer, protocols::ligand_docking::RandomConformerMover, protocols::magnesium::MgOrbitalFrameFinder, protocols::moves::VectorPoseMover, protocols::rbsegment_relax::AutoRBMover, protocols::rigid::MovePoseToMembraneCenterMover, protocols::simple_moves::ChainSplitMover, protocols::simple_moves::oop::OopMover, protocols::simple_moves::oop::OopPatcher, protocols::simple_moves::ResetFoldTree, protocols::simple_moves::triazolamer::TriazolamerMover, protocols::stepwise::modeler::rna::sugar::SugarInstantiateMover, protocols::stepwise::modeler::rna::sugar::SugarVirtualizeMover, protocols::stepwise::sampler::protein::ProteinBetaAntiParallelStepWiseSampler, protocols::hybridization::WeightedFragmentTrialMover, protocols::moves::NullMover, protocols::simple_moves::hbs::HbsPatcher, protocols::comparative_modeling::StealSideChainsMover, protocols::mpi_refinement::StructAvrgMover, protocols::loop_modeling::utilities::LoopFilter, protocols::relax::MiniRelax, protocols::canonical_sampling::WTEBiasEnergy, protocols::loop_modeling::utilities::PrepareForCentroid, protocols::RotamerDump::RotamerDumpMover, protocols::simple_moves::ClearConstraintsMover, protocols::simple_moves::CutChainMover, protocols::simple_moves::oop::OopPuckPlusMover, protocols::comparative_modeling::RecoverSideChainsMover, protocols::domain_assembly::AddAssemblyConstraints, protocols::coupled_moves::CoupledMovesProtocol, protocols::domain_assembly::CombineChainsMover, protocols::docking::stateless::SaneDockingProtocol, protocols::loop_build::LoopBuildMover, and protocols::RBSegmentRelaxImpl.
Referenced by protocols::forge::remodel::RemodelConstraintGenerator::clear_stored_constraints(), protocols::environment::ClientMover::initialize(), protocols::moves::operator<<(), protocols::forge::remodel::RemodelConstraintGenerator::parse_my_tag(), protocols::environment::ClientMover::passport(), protocols::environment::ClientMover::pop_passport(), protocols::environment::ClientMover::push_passport(), protocols::forge::remodel::RemodelConstraintGenerator::remove_remodel_constraints_from_pose(), protocols::environment::ClientMover::sandboxed_copy(), show(), and protocols::environment::ClientMover::state_check().
PoseCOP protocols::moves::Mover::get_native_pose | ( | ) | const |
References native_pose_.
Referenced by protocols::flexpep_docking::FlexPepDockingProtocol::addLowResStatistics(), protocols::farna::RNA_FragmentMonteCarlo::align_pose(), protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup::align_poses(), protocols::docking::stateless::SaneDockingProtocol::apply(), protocols::stepwise::setup::StepWiseMonteCarloJobDistributor::apply(), protocols::simple_moves::symmetry::SymmetricRMSMover::apply(), protocols::cluster::GatherPosesMover::apply(), protocols::antibody::GraftCDRLoopsProtocol::apply(), protocols::farna::RNA_DeNovoProtocol::apply(), protocols::farna::RNA_FragmentMonteCarlo::apply(), protocols::antibody::ModelCDRH3::apply(), protocols::flexpep_docking::FlexPepDockingProtocol::apply(), protocols::antibody_legacy::AntibodyModeler::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::apply(), protocols::simple_moves::ScoreMover::apply(), protocols::antibody::RefineOneCDRLoop::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::apply(), protocols::antibody_legacy::GraftMover::apply(), protocols::relax::ClassicRelax::apply(), protocols::relax::FastRelax::apply(), protocols::docking::DockingProtocol::apply(), protocols::symmetric_docking::SymDockProtocol::apply(), protocols::rosetta_scripts::ParsedProtocol::apply_mover(), protocols::relax::FastRelax::batch_apply(), protocols::symmetric_docking::SymDockProtocol::calc_rms(), protocols::relax::FastRelax::cmd_accept_to_best(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_five(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_four(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_one(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_three(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_two(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::debug_zero(), protocols::abinitio::KinematicAbinitio::dump_jump_log(), protocols::antibody::AntibodyModelerProtocol::echo_metrics_to_jd2(), protocols::enzdes::EnzdesBaseProtocol::enzdes_pack(), protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::filter_and_save(), protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::filter_native_BIG_BINS(), protocols::antibody::GraftCDRLoopsProtocol::finalize_setup(), protocols::antibody::AntibodyModelerProtocol::finalize_setup(), protocols::farna::RNA_FragmentMonteCarlo::get_rmsd_no_superimpose(), protocols::farna::RNA_FragmentMonteCarlo::get_rmsd_stems_no_superimpose(), protocols::stepwise::monte_carlo::StepWiseMonteCarlo::initialize(), protocols::stepwise::monte_carlo::mover::StepWiseMasterMover::initialize(), protocols::farna::RNA_FragmentMonteCarlo::initialize_parameters(), protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup::initialize_pose_from_streams(), protocols::stepwise::modeler::StepWiseConnectionSampler::initialize_pose_level_screeners(), protocols::stepwise::modeler::StepWiseModeler::initialize_working_parameters_and_root(), protocols::flexpep_docking::FlexPepDockingProtocol::markInterfaceBySideChainContacts(), protocols::flexpep_docking::FlexPepDockingProtocol::markNativeInterface(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD::model_loop(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::model_loop(), protocols::stepwise::monte_carlo::StepWiseMonteCarlo::output_checkpoint_file(), protocols::magnesium::MgScanner::output_mg_to_silent_file(), protocols::stepwise::modeler::StepWiseMinimizer::output_minimized_pose_list(), protocols::stepwise::monte_carlo::StepWiseMonteCarlo::output_movie(), protocols::stepwise::monte_carlo::rna::RNA_AddDeleteMonteCarlo::output_silent_file(), protocols::farna::RNA_DeNovoProtocol::output_silent_struct(), protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler::prepare_ghost_pose(), protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure::process_fragments(), protocols::loops::loop_closure::ccd::FASelectSlidingWindowLoopClosure::select_final_loop(), protocols::stepwise::legacy::modeler::rna::StepWiseRNA_PoseSetup::setup_native_pose(), protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup::setup_working_native_pose(), protocols::flexpep_docking::FlexPepDockingProtocol::storeJobStatistics(), and protocols::stepwise::setup::StepWiseCSA_JobDistributor::update_bank().
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inline |
Referenced by protocols::enzdes::EnzdesFlexBBProtocol::add_flexible_region(), protocols::forge::components::VarLengthBuild::add_rcg(), protocols::rosetta_scripts::ParsedProtocol::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::apply(), protocols::abinitio::abscript::FragmentJumpCM::build_claims(), protocols::enzdes::EnzdesFlexBBProtocol::determine_flexible_regions(), protocols::enzdes::SecondaryMatchProtocol::generate_and_dump_pose_found_residues_combinations(), protocols::canonical_sampling::BiasEnergy::initialize_simulation(), protocols::environment::ScriptCM::parse_my_tag(), protocols::loops::loop_closure::kinematic_closure::KinematicMover::perturber(), protocols::canonical_sampling::MetropolisHastingsMover::prepare_simulation(), protocols::environment::ClientMover::push_passport(), protocols::loops::loop_closure::kinematic_closure::KinematicMover::set_perturber(), protocols::abinitio::abscript::StructPerturberCM::yield_claims(), protocols::abinitio::abscript::RigidChunkCM::yield_claims(), protocols::loops::loop_mover::LoopCM::yield_claims(), protocols::abinitio::abscript::AbscriptLoopCloserCM::yield_claims(), protocols::rigid::UniformRigidBodyCM::yield_claims(), and protocols::canonical_sampling::BiasEnergy::~BiasEnergy().
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inline |
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inline |
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inline |
References type_.
Referenced by protocols::simple_moves::ResetBaselineMover::apply(), protocols::moves::operator<<(), protocols::simple_moves::ResetBaselineMover::parse_my_tag(), and show().
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inlinevirtual |
non-const accessor
References info_.
Referenced by protocols::farna::ErraserMinimizerMover::add_virtual_res(), protocols::simple_moves::ExtendedPoseMover::apply(), protocols::protein_interface_design::movers::LoopOver::apply(), protocols::environment::EnvMover::apply(), protocols::dna::DnaInterfacePacker::apply(), protocols::rosetta_scripts::ParsedProtocol::apply_filter(), protocols::moves::PyMOLMover::get_PyMOL_model_name(), protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover::initialize(), protocols::dna::DnaInterfaceMultiStateDesign::initialize(), protocols::dna::DnaInterfacePacker::measure_bp_specificities(), protocols::simple_moves::PackRotamersMover::note_packertask_settings(), protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover::output_results(), protocols::dna::DnaInterfaceMultiStateDesign::output_results(), protocols::dna::DnaInterfacePacker::post_packing(), protocols::moves::PyMOLMover::send_any(), protocols::moves::PyMOLMover::send_energy(), protocols::moves::PyMOLMover::send_hbonds(), protocols::moves::PyMOLMover::send_RAW_Energies(), protocols::toolbox::match_enzdes_util::AlignPoseToInvrotTreeMover::set_geomcst_for_superposition_from_enz_io(), and protocols::dna::DesignProteinBackboneAroundDNA::set_loop_info().
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const accessor
References info_.
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inlinevirtual |
Reimplemented in protocols::simple_moves::sidechain_moves::SidechainMover, protocols::moves::RandomMover, protocols::simple_moves::sidechain_moves::SidechainMoverBase, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::simple_moves::BBGaussianMover, protocols::kinematic_closure::BalancedKicMover, and protocols::canonical_sampling::ThermodynamicMover.
Referenced by protocols::canonical_sampling::SidechainMetropolisHastingsMover::pass_metropolis().
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inlinestatic |
Referenced by protocols::dna::DnaInterfaceMultiStateDesign::add_dna_states(), protocols::RBSegmentRelaxImpl::apply(), protocols::loop_build::LoopBuildMover::apply(), protocols::simple_moves::DumpPdb::apply(), protocols::protein_interface_design::movers::DisulfideMover::apply(), protocols::recces::scratch::ThermalSamplingMover::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::apply(), protocols::moves::StructureRestrictor::apply(), protocols::canonical_sampling::CanonicalSamplingMover::apply(), protocols::moves::PyMOLMover::apply(), protocols::ligand_docking::HighResDocker::enable_ligand_rotamer_packing(), protocols::ligand_docking::LigandDesign::fragments_to_string(), protocols::cluster::GatherPosesMover::get_distance_measure(), protocols::stepwise::sampler::StepWiseSamplerOneValue::get_name(), protocols::moves::RandomMover::get_name_individual_mover(), protocols::farna::ErraserMinimizerMover::ideal_length(), protocols::farna::ErraserMinimizerMover::ideal_length_ncnt(), protocols::ncbb::SecStructFinder::initialize_rtype_vector(), protocols::ligand_docking::LigandDockMain::LigandDockMain(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::model_loop(), protocols::ligand_docking::LigandDockProtocol::optimize_orientation3(), protocols::ligand_docking::CompoundTranslate::parse_my_tag(), protocols::ligand_docking::StartFrom::parse_my_tag(), protocols::cyclic_peptide::PeptideCyclizeMover::parse_my_tag(), protocols::simple_moves::FavorSequenceProfile::parse_my_tag(), protocols::cyclic_peptide::FlipChiralityMover::parse_my_tag(), protocols::ligand_docking::InterfaceScoreCalculator::parse_my_tag(), protocols::rosetta_scripts::MultipleOutputWrapper::parse_my_tag(), protocols::rosetta_scripts::AdditionalOutputWrapper::parse_my_tag(), protocols::canonical_sampling::MetricRecorder::parse_my_tag(), protocols::abinitio::abscript::AbscriptMover::parse_my_tag(), protocols::ligand_docking::StartFrom::parse_pdb_file(), protocols::moves::StructureRestrictor::pose_name(), protocols::recces::RECCES_Mover::prepare_output_torsion_ids(), protocols::simple_moves::RingConformationMover::provide_xml_schema(), protocols::nonlocal::SingleFragmentMover::provide_xml_schema(), protocols::normalmode::NormalModeRelaxMover::provide_xml_schema(), protocols::flxbb::FlxbbDesign::read_options(), protocols::moves::PyMOLMover::send_any(), protocols::moves::PyMOLMover::send_energy(), protocols::moves::PyMOLMover::send_hbonds(), protocols::moves::PyMOLMover::send_membrane_planes(), protocols::moves::PyMOLMover::send_RAW_Energies(), protocols::simple_moves::bin_transitions::InitializeByBins::set_binfile_and_load(), protocols::simple_moves::bin_transitions::PerturbByBins::set_binfile_and_load(), protocols::dna::DnaInterfacePacker::set_filename_root(), protocols::moves::PyMOLMover::set_PyMOL_model_name(), and protocols::helical_bundle::MakeBundleHelix::set_tail_residue_name().
assignment operator
References current_job_, current_tag_, input_pose_, last_status_, native_pose_, and type_.
Referenced by protocols::enzymatic_movers::EnzymaticMover::operator=(), protocols::antibody::snugdock::SnugDockProtocol::operator=(), protocols::simple_moves::RingConformationMover::operator=(), core::fragment::BBTorsionSRFD::operator=(), protocols::loops::loop_closure::ccd::RamaCheckBase::operator=(), protocols::moves::FilterReporterMover::operator=(), protocols::antibody::snugdock::SnugDock::operator=(), protocols::canonical_sampling::ParallelTempering::operator=(), protocols::canonical_sampling::AsyncMPITemperingBase::operator=(), protocols::antibody::GraftOneCDRLoop::operator=(), and protocols::antibody::GraftedStemOptimizer::operator=().
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Called by MoverFactory when constructing new Movers. Takes care of the specific mover's parsing.
Some movers need not be parsed, so we shouldn't stop executions. This, however, calls attention to the lack of this method, which could be due to something as silly as a wrong parameters definition.
Reimplemented in protocols::forge::remodel::RemodelMover, protocols::rigid::RigidBodyTransMover, protocols::rigid::RigidBodyTiltMover, protocols::moves::PyMOLMover, protocols::hbnet::HBNet, protocols::membrane::TranslationRotationMover, protocols::cryst::SetRefinementOptionsMover, protocols::cryst::MakeLatticeMover, protocols::simple_moves::GenericMonteCarloMover, protocols::cryst::TagPoseWithRefinementStatsMover, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::analysis::InterfaceAnalyzerMover, protocols::membrane::SetMembraneCenterMover, protocols::fldsgn::BluePrintBDR, protocols::cryst::UpdateSolventMover, protocols::motif_grafting::movers::MotifGraftMover, protocols::docking::DockingProtocol, protocols::membrane::RotationMover, protocols::flxbb::FlxbbDesign, protocols::comparative_modeling::LoopRelaxMover, protocols::moves::TrialMover, protocols::cryst::FitBfactorsMover, protocols::moves::RandomMover, protocols::forge::remodel::ResidueVicinityRCG, protocols::features::ReportToDB, protocols::antibody::AntibodyCDRGrafter, protocols::enzdes::PredesignPerturbMover, protocols::simple_moves::BackboneMover, protocols::membrane::SetMembraneNormalMover, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::moves::RampingMover, protocols::cryst::DockLatticeMover, protocols::cryst::MakeLayerMover, protocols::cryst::LoadDensityMapMover, protocols::membrane::AddMembraneMover, protocols::carbohydrates::SimpleGlycosylateMover, protocols::simple_moves::BBGaussianMover, protocols::symmetric_docking::SymDockProtocol, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::sewing::AssemblyConstraintsMover, protocols::fldsgn::CircularPermutation, protocols::carbohydrates::LinkageConformerMover, protocols::simple_moves::MinMover, protocols::docking::TemperedDocking, protocols::cryst::RecomputeDensityMapMover, protocols::farna::RNAThreadAndMinimizeMover, protocols::canonical_sampling::BiasEnergy, protocols::hybridization::HybridizeProtocol, protocols::pose_length_moves::NearNativeLoopCloser, protocols::simple_moves::CoupledMover, protocols::relax::FastRelax, protocols::carbohydrates::GlycanRelaxMover, protocols::docking::DockingInitialPerturbation, protocols::idealize::IdealizeMover, protocols::rosetta_scripts::ParsedProtocol, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::sewing::AssemblyMover, protocols::grafting::AnchoredGraftMover, protocols::loops::loop_closure::ccd::CCDLoopClosureMover, protocols::simple_moves::BoltzmannRotamerMover, protocols::simple_moves::PackRotamersMover, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::loop_modeling::LoopMover, protocols::membrane::symmetry::SymmetricAddMembraneMover, protocols::membrane::TranslationMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::backrub::BackrubProtocol, protocols::protein_interface_design::movers::PlaceStubMover, protocols::simple_moves::EvolutionaryDynamicsMover, protocols::simple_moves::PeriodicBoxMover, protocols::nonlocal::SingleFragmentMover, protocols::sewing::RepeatAssemblyMover, protocols::simple_moves::symmetry::SetupNCSMover, protocols::membrane::TransformIntoMembraneMover, protocols::cyclic_peptide::ThreefoldLinkerMover, protocols::docking::membrane::MPDockingMover, protocols::ncbb::oop::OopCreatorMover, protocols::sewing::MonteCarloAssemblyMover, protocols::electron_density::BfactorFittingMover, protocols::simple_moves::RotamerTrialsMover, protocols::simple_moves::GenericSimulatedAnnealer, protocols::cryst::UpdateCrystInfo, protocols::membrane::FlipMover, protocols::simple_moves::DeleteChainsMover, protocols::antibody::design::AntibodyDesignMover, protocols::helical_bundle::BundleGridSampler, protocols::simple_moves::ConsensusDesignMover, protocols::flxbb::InterlockAroma, protocols::simple_moves::RotamerTrialsMinMover, protocols::simple_moves::SimpleThreadingMover, protocols::ligand_docking::HighResEnsemble, protocols::membrane::SetMembranePositionMover, protocols::simple_moves::ReportEffectivePKA, protocols::simple_moves::bin_transitions::InitializeByBins, protocols::simple_moves::bin_transitions::PerturbByBins, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::helical_bundle::PerturbBundle, protocols::membrane::visualize::VisualizeMembraneMover, protocols::simple_moves::BBDihedralSamplerMover, protocols::cryst::SetCrystWeightMover, protocols::helical_bundle::MakeBundle, protocols::membrane::TiltMover, protocols::ncbb::oop::OopDockDesignProtocol, protocols::simple_moves::ConvertRealToVirtualMover, protocols::md::CartesianMD, protocols::membrane::AddMPLigandMover, protocols::membrane::SpinAroundPartnerMover, protocols::ncbb::NcbbDockDesignProtocol, protocols::simple_moves::ConvertVirtualToRealMover, protocols::simple_moves::StorePoseSnapshot, protocols::denovo_design::movers::BuildDeNovoBackboneMover, protocols::membrane::MPQuickRelaxMover, protocols::canonical_sampling::ParallelTempering, protocols::docking::DockSetupMover, protocols::hybridization::BackboneTorsionPerturbation, protocols::hybridization::BackboneTorsionSampler, protocols::recces::scratch::ThermalMinimizer, protocols::denovo_design::movers::FastDesign, protocols::dna::DnaInterfacePacker, protocols::grafting::simple_movers::KeepRegionMover, protocols::hbnet::HBNetStapleInterface, protocols::helical_bundle::BackboneGridSampler, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::recces::scratch::ThermalSamplingMover, protocols::abinitio::abscript::AbscriptMover, protocols::antibody::design::MutateFrameworkForCluster, protocols::loop_modeling::LoopProtocol, protocols::protein_interface_design::movers::TryRotamers, protocols::simple_moves::PertMinMover, protocols::symmetric_docking::membrane::MPSymDockMover, protocols::moves::MonteCarloUtil, protocols::relax::membrane::MPFastRelaxMover, protocols::simple_moves::SetTorsion, protocols::loop_modeling::LoopBuilder, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::simple_moves::MonteCarloTest, protocols::antibody::AntibodyNumberingConverterMover, protocols::canonical_sampling::MetricRecorder, protocols::denovo_design::movers::FoldTreeFromFoldGraphMover, protocols::ligand_docking::Rotate, protocols::simple_moves::MinPackMover, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::docking::membrane::MPDockingSetupMover, protocols::docking::membrane::MPFindInterfaceMover, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::simple_moves::MonteCarloReset, protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover, protocols::membrane::OptimizeMembranePositionMover, protocols::simple_moves::CopyRotamerMover, protocols::simple_moves::ShortBackrubMover, protocols::canonical_sampling::TemperingBase, protocols::ligand_docking::TransformEnsemble, protocols::matdes::MatDesGreedyOptMutationMover, protocols::simple_moves::MonteCarloRecover, protocols::forge::constraints::InverseRotamersRCG, protocols::ligand_docking::Transform, protocols::matdes::SymDofMover, protocols::membrane::MPLipidAccessibility, protocols::relax::membrane::MPRangeRelaxMover, protocols::simple_moves::ExtendedPoseMover, protocols::backbone_moves::local_backbone_mover::LocalBackboneMover, protocols::docking::membrane::QuickRelaxPartnersSeparately, protocols::fldsgn::MatchResiduesMover, protocols::hybridization::CartesianSampler, protocols::match::MatcherMover, protocols::sewing::AppendAssemblyMover, protocols::simple_moves::CstInfoMover, protocols::simple_moves::symmetry::SymMinMover, protocols::toolbox::task_operations::StoreCompoundTaskMover, protocols::backrub::BackrubSidechainMover, protocols::enzdes::BackboneSampler, protocols::membrane::MembranePositionFromTopologyMover, protocols::relax::LocalRelax, protocols::simple_moves::RingConformationMover, protocols::electron_density::VoxelSpacingRefinementMover, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::aa_composition::AddCompositionConstraintMover, protocols::aa_composition::ClearCompositionConstraintsMover, protocols::cyclic_peptide::SymmetricCycpepAlign, protocols::denovo_design::movers::RotateSegmentMover, protocols::grafting::simple_movers::ReplaceRegionMover, protocols::ligand_docking::HighResDocker, protocols::membrane::benchmark::SampleTiltAngles, protocols::membrane::MPMutateRelaxMover, protocols::protein_interface_design::movers::LoopRemodel, protocols::simple_moves::DisulfideInsertionMover, protocols::aa_composition::AddHelixSequenceConstraintsMover, protocols::abinitio::abscript::RigidChunkCM, protocols::backrub::BackrubMover, protocols::design_opt::GreedyOptMutationMover, protocols::farna::RNAIdealizeMover, protocols::features::TrajectoryReportToDB, protocols::hotspot_hashing::movers::PlaceSurfaceProbe, protocols::loop_modeling::LoopModeler, protocols::membrane::HelixFromSequence, protocols::normalmode::NormalModeMinimizer, protocols::protein_interface_design::movers::DisulfideMover, protocols::simple_moves::sidechain_moves::SidechainMoverBase, protocols::abinitio::abscript::AbscriptLoopCloserCM, protocols::normalmode::NormalModeRelaxMover, protocols::rigid::UniformRigidBodyCM, protocols::simple_moves::symmetry::SymRotamerTrialsMover, protocols::abinitio::abscript::FragmentJumpCM, protocols::moves::FilterReportAsPoseExtraScoresMover, protocols::protein_interface_design::movers::BackrubDDMover, protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover, protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover, protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover, protocols::antibody::design::AntibodyDesignProtocol, protocols::canonical_sampling::HamiltonianExchange, protocols::canonical_sampling::SimulatedTempering, protocols::canonical_sampling::TrajectoryRecorder, protocols::denovo_design::movers::BridgeChainsMover, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::environment::CoMTrackerCM, protocols::enzdes::EnzRepackMinimize, protocols::enzymatic_movers::EnzymaticMover, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::grafting::simple_movers::InsertPoseIntoPoseMover, protocols::loophash::LoopHashDiversifier, protocols::membrane::OptimizeProteinEmbeddingMover, protocols::pose_length_moves::ConnectChainsMover, protocols::rosetta_scripts::MultiplePoseMover, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::cyclic_peptide::TryDisulfPermutations, protocols::denovo_design::movers::SealFoldTreeMover, protocols::farna::ErraserMinimizerMover, protocols::generalized_kinematic_closure::GeneralizedKIC, protocols::grafting::simple_movers::DeleteRegionMover, protocols::ligand_docking::Translate, protocols::simple_moves::ddG, protocols::simple_moves::MutateResidue, protocols::symmetric_docking::SymFoldandDockRbTrialMover, protocols::abinitio::abscript::StructPerturberCM, protocols::denovo_design::movers::AlignResiduesMover, protocols::simple_moves::Tumble, protocols::struct_fragment::StructFragmentMover, protocols::denovo_design::movers::AddSegmentDataMover, protocols::denovo_design::movers::MakeAsymmetricStructureDataMover, protocols::moves::DsspMover, protocols::moves::IfMover, protocols::ncbb::SecStructFinder, protocols::rosetta_scripts::AdditionalOutputWrapper, protocols::simple_moves::PackRotamersMoverLazy, protocols::simple_moves::RepackSidechainsMover, protocols::simple_moves::symmetry::TaskAwareSymMinMover, protocols::denovo_design::movers::SetResidueAliasMover, protocols::protein_interface_design::movers::DockWithHotspotMover, protocols::ncbb::SecStructMinimizeMover, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::rigid::RollMover, protocols::rosetta_scripts::MultipleOutputWrapper, protocols::simple_moves::MembraneTopology, protocols::simple_moves::MergePDBMover, protocols::enzymatic_movers::GlycosyltransferaseMover, protocols::protein_interface_design::movers::LoopFinder, protocols::enzdes::AddOrRemoveMatchCsts, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::forge::constraints::InvrotTreeRCG, protocols::helical_bundle::FitSimpleHelix, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::protein_interface_design::movers::RepackMinimize, protocols::sewing::GivenPathAssemblyMover, protocols::sewing::GreedyAssemblyMover, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::ScoreMover, protocols::simple_moves::TaskAwareMinMover, protocols::constraint_generator::RemoveConstraints, protocols::environment::ScriptCM, protocols::features::InterfaceDdGMover, protocols::forge::constraints::RemoveRemodelCsts, protocols::ligand_docking::MinimizeBackbone, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::simple_moves::StructProfileMover, protocols::forge::remodel::RemodelConstraintGenerator, protocols::membrane::benchmark::MakeCanonicalHelix, protocols::antibody::constraints::ParatopeEpitopeSiteConstraintMover, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::contact_map::ContactMap, protocols::denovo_design::DisulfidizeMover, protocols::dna::DnaInterfaceMultiStateDesign, protocols::ligand_docking::FinalMinimizer, protocols::moves::IteratedConvergenceMover, protocols::moves::StructureRestrictor, protocols::qsar::RenderGridsToKinemage, protocols::rbsegment_relax::OptimizeThreadingMover, protocols::antibody::constraints::CDRDihedralConstraintMover, protocols::constraint_generator::AddConstraints, protocols::ligand_docking::InterfaceScoreCalculator, protocols::ligand_docking::SlideTogether, protocols::pose_length_moves::AnalyzeLoopModeling, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::relax::AtomCoordinateCstMover, protocols::rigid::UniformRigidBodyMover, protocols::seeded_abinitio::SeedFoldTree, protocols::simple_moves::ResidueTypeConstraintMover, protocols::canonical_sampling::TrialCounterObserver, protocols::cryst::ReportGradientsMover, protocols::matdes::ExtractSubposeMover, protocols::pose_length_moves::InsertResMover, protocols::cyclic_peptide::FlipChiralityMover, protocols::denovo_design::movers::ExtendChainMover, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::SeparateDnaFromNonDna, protocols::sewing::EnumerateAssemblyMover, protocols::simple_moves::ModifyVariantTypeMover, protocols::abinitio::abscript::FragmentCM, protocols::forge::constraints::NtoCConstraintGenerator, protocols::loop_modeling::utilities::PrepareForFullatom, protocols::protein_interface_design::movers::MapHotspot, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::simple_moves::RandomOmegaFlipMover, protocols::simple_moves::RandomTorsionMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::simple_moves::SuperimposeMover, protocols::electron_density::SetupForDensityScoringMover, protocols::ligand_docking::ComputeLigandRDF, protocols::ligand_docking::GrowLigand, protocols::sewing::AddStartnodeFragments, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::MSDMover, protocols::abinitio::abscript::ConstraintPreparer, protocols::analysis::LoopAnalyzerMover, protocols::cyclic_peptide::CreateTorsionConstraint, protocols::dna::DnaInterfaceMinMover, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::LigandDesign, protocols::pose_length_moves::FixAllLoopsMover, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::symmetric_docking::SymFoldandDockSlideTrialMover, protocols::loops::loop_mover::LoopCM, protocols::protein_interface_design::movers::LoopOver, protocols::abinitio::DomainAssembly, protocols::antibody::constraints::ParatopeSiteConstraintMover, protocols::cyclic_peptide::CreateDistanceConstraint, protocols::protein_interface_design::movers::NucleotideMutation, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::residue_selectors::StoreResidueSubsetMover, protocols::rosetta_scripts::SavePoseMover, protocols::seeded_abinitio::SegmentHybridizer, protocols::simple_moves::SwitchChainOrderMover, protocols::toolbox::task_operations::StoreCombinedStoredTasksMover, protocols::cyclic_peptide::PeptideCyclizeMover, protocols::fldsgn::SheetRemodelConstraintGenerator, protocols::ligand_docking::StartFrom, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::rbsegment_relax::IdealizeHelicesMover, protocols::seeded_abinitio::CloseFold, protocols::simple_moves::DumpPdb, protocols::electron_density::ReportFSC, protocols::ligand_docking::Rotates, protocols::matdes::SchemePlaceMotifsMover, protocols::protein_interface_design::movers::VLB, protocols::simple_moves::RepeatPropagationMover, protocols::toolbox::task_operations::StoreTaskMover, protocols::cyclic_peptide::PeptideStubMover, protocols::electron_density::ScaleMapIntensities, protocols::loop_modeling::refiners::RepackingRefiner, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::simple_moves::LoadUnboundRotMover, protocols::simple_moves::symmetry::DetectSymmetry, protocols::symmetric_docking::SymFoldandDockMoveRbJumpMover, protocols::protein_interface_design::movers::BuildAlaPose, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::RandomMutation, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::SpinMover, protocols::protein_interface_design::movers::TopologyBrokerMover, protocols::seeded_abinitio::CAcstGenerator, protocols::simple_moves::PDBReloadMover, protocols::loop_modeling::refiners::MinimizationRefiner, protocols::loophash::LoopHashMoverWrapper, protocols::seeded_abinitio::GrowPeptides, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::LoadPDBMover, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::rbsegment_relax::MakeStarTopologyMover, protocols::seeded_abinitio::SwapSegment, protocols::simple_moves::DeleteChainMover, protocols::simple_moves::FindConsensusSequence, protocols::environment::EnvMover, protocols::protein_interface_design::movers::LoopLengthChange, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::AlignChainMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::PatchdockTransform, protocols::protein_interface_design::movers::SubroutineMover, protocols::simple_moves::AddJobPairData, protocols::simple_moves::ForceDisulfidesMover, protocols::cyclic_peptide::CreateAngleConstraint, protocols::ligand_docking::CompoundTranslate, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::simple_moves::CutChainMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::qsar::qsarMover, protocols::simple_moves::AddChainMover, protocols::simple_moves::ContingentAcceptMover, protocols::simple_moves::SequenceProfileMover, protocols::simple_moves::VirtualRootMover, protocols::ligand_docking::RandomConformers, protocols::loops::FoldTreeFromLoops, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::qsar::scoring_grid::GridInitMover, protocols::simple_moves::ResetBaselineMover, protocols::loop_modeling::refiners::RotamerTrialsRefiner, protocols::simple_moves::PSSM2BfactorMover, protocols::cyclic_peptide::DeclareBond, protocols::ligand_docking::WriteLigandMolFile, protocols::loop_build::LoopmodelWrapper, protocols::simple_moves::ClearConstraintsMover, protocols::simple_moves::FavorSymmetricSequence, and protocols::simple_moves::ResetFoldTree.
References protocols::moves::TR().
Referenced by protocols::canonical_sampling::SimulatedTempering::parse_my_tag().
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inlinestatic |
Overload this static method if you access options within the mover.
These options will end up in -help of your application if users of this mover call register_options. Do this recursively! If you use movers within your mover, call their register_options in your register_options() method.
Referenced by protocols::canonical_sampling::SilentTrajectoryRecorder::register_options(), protocols::enzdes::EnzdesFixBBProtocol::register_options(), protocols::enzymatic_movers::EnzymaticMover::register_options(), protocols::enzdes::EnzdesFlexBBProtocol::register_options(), protocols::simple_moves::RingConformationMover::register_options(), protocols::enzdes::EnzdesBaseProtocol::register_options(), protocols::antibody::snugdock::SnugDockProtocol::register_options(), protocols::jd2::archive::NormalizedEvaluatedArchive::register_options(), protocols::jd2::archive::EvaluatedArchive::register_options(), protocols::antibody::snugdock::SnugDock::register_options(), protocols::abinitio::KinematicAbinitio::register_options(), protocols::abinitio::ConstraintFragmentSampler::register_options(), protocols::enzdes::DetectProteinLigandInterface::register_options(), protocols::abinitio::FragmentSampler::register_options(), protocols::abinitio::ClassicAbinitio::register_options(), and protocols::abinitio::IterativeBase::register_options().
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virtual |
Inform the Job Distributor (August '08 vintage) whether this object needs to be freshly regenerated on each use.
Movers default to not regenerating
Reimplemented in protocols::analysis::InterfaceAnalyzerMover, protocols::carbohydrates::LinkageConformerMover, protocols::ligand_docking::LigandDockMain, protocols::carbohydrates::GlycanRelaxMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::canonical_sampling::TemperatureController, protocols::canonical_sampling::MetricRecorder, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::ligand_docking::HighResEnsemble, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::floppy_tail::FloppyTailMover, and protocols::anchored_design::AnchoredDesignMover.
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virtual |
Inform the Job Distributor (August '08 vintage) whether this object needs to be regenerated when the input pose is about to change, (for example, if the Mover has special code on the first apply() that is only valid for that one input pose).
Movers default to not regenerating
Reimplemented in protocols::analysis::InterfaceAnalyzerMover, protocols::carbohydrates::LinkageConformerMover, protocols::ligand_docking::LigandDockMain, protocols::docking::DockingProtocol, protocols::canonical_sampling::MetropolisHastingsMover, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::canonical_sampling::TemperatureController, protocols::sewing::AssemblyMover, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::hotspot_hashing::movers::PlaceSurfaceProbe, protocols::antibody::snugdock::SnugDock, protocols::floppy_tail::FloppyTailMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycle, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::loops::loop_mover::refine::RepackTrial, protocols::hotspot_hashing::movers::PlaceProbeMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::analysis::LoopAnalyzerMover, protocols::antibody::design::AntibodyDesignProtocol, protocols::antibody::snugdock::SnugDockProtocol, and protocols::anchored_design::AnchoredDesignMover.
void protocols::moves::Mover::reset_status | ( | ) |
resets status to SUCCESS, meant to be used before an apply(). The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
The job distributor (august 08 vintage) uses this to ensure non-accumulation of status across apply()s.
References last_status_, and protocols::moves::MS_SUCCESS.
Referenced by protocols::carbohydrates::LinkageConformerMover::apply(), protocols::abinitio::Protocol::apply(), and protocols::denovo_design::movers::FastDesign::apply().
void protocols::moves::Mover::set_current_job | ( | protocols::jobdist::BasicJobCOP | job | ) |
References current_job_.
Referenced by protocols::abinitio::AbrelaxApplication::fold().
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inlinevirtual |
Reimplemented in protocols::moves::MoverContainer.
References current_tag_.
Referenced by protocols::loop_build::LoopBuildMover::apply(), protocols::abinitio::AbrelaxMover::apply(), protocols::abinitio::KinematicAbinitio::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::docking::DockingSlideIntoContact::apply(), protocols::docking::FaDockingSlideIntoContact::apply(), protocols::docking::SlideIntoContact::apply(), protocols::abinitio::abscript::AbscriptLoopCloserCM::attempt_ccd(), protocols::abinitio::AbrelaxApplication::fold(), protocols::abinitio::AbrelaxApplication::relax(), protocols::moves::MoverContainer::set_current_tag(), and protocols::jobdist::universal_main().
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virtual |
setter for poses contained for rms
Reimplemented in protocols::moves::TrialMover, protocols::simple_moves::CoupledMover, protocols::simple_moves::ShortBackrubMover, and protocols::moves::MoverContainer.
References input_pose_.
Referenced by protocols::docking::stateless::SaneDockingProtocol::apply(), protocols::protein_interface_design::movers::BackrubDDMover::apply(), protocols::symmetric_docking::SymDockProtocol::apply(), protocols::dna::DesignProteinBackboneAroundDNA::backrub(), protocols::antibody::GraftCDRLoopsProtocol::finalize_setup(), protocols::antibody::AntibodyModelerProtocol::finalize_setup(), protocols::docking::DockingProtocol::finalize_setup(), protocols::jobdist::main_plain_mover(), protocols::moves::MoverContainer::set_input_pose(), and protocols::moves::TrialMover::set_input_pose().
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protected |
nonvirtual setter for MoverStatus last_status_. Protected means that only the mover itself will be able to change its own status. The job distributor (august 08 vintage) is aware of status set with this function and will do what the MoverStatus says.
use this function for implementing filtering in your protocol - failed jobs should set the status to something other than "SUCCESS".
References last_status_.
Referenced by protocols::loop_build::LoopBuildMover::apply(), protocols::protein_interface_design::movers::DockAndRetrieveSidechains::apply(), protocols::loophash::LoopHashMoverWrapper::apply(), protocols::rosetta_scripts::SavePoseMover::apply(), protocols::protein_interface_design::movers::VLB::apply(), protocols::protein_interface_design::movers::PlaceOnLoop::apply(), protocols::protein_interface_design::movers::MapHotspot::apply(), protocols::pose_length_moves::FixAllLoopsMover::apply(), protocols::protein_interface_design::movers::LoopOver::apply(), protocols::environment::EnvMover::apply(), protocols::pose_length_moves::InsertResMover::apply(), protocols::antibody::AntibodyModelerProtocol::apply(), protocols::sewing::AssemblyMover::apply(), protocols::moves::IfMover::apply(), protocols::protein_interface_design::movers::PlacementAuctionMover::apply(), protocols::abinitio::AbrelaxMover::apply(), protocols::protein_interface_design::movers::DockWithHotspotMover::apply(), protocols::moves::FilterMover::apply(), protocols::simple_moves::BBDihedralSamplerMover::apply(), protocols::antibody::constraints::ParatopeSiteConstraintMover::apply(), protocols::cyclic_peptide::SymmetricCycpepAlign::apply(), protocols::simple_moves::DisulfideInsertionMover::apply(), protocols::floppy_tail::FloppyTailMover::apply(), protocols::generalized_kinematic_closure::GeneralizedKIC::apply(), protocols::loophash::LoopHashDiversifier::apply(), protocols::loops::loop_closure::kinematic_closure::KinematicWrapper::apply(), protocols::rosetta_scripts::MultiplePoseMover::apply(), protocols::abinitio::abscript::AbscriptLoopCloserCM::apply(), protocols::antibody::constraints::ParatopeEpitopeSiteConstraintMover::apply(), protocols::protein_interface_design::movers::LoopRemodel::apply(), protocols::rosetta_scripts::ParsedProtocol::apply(), protocols::helical_bundle::BackboneGridSampler::apply(), protocols::fldsgn::MatchResiduesMover::apply(), protocols::protein_interface_design::movers::TryRotamers::apply(), protocols::denovo_design::movers::BuildDeNovoBackboneMover::apply(), protocols::carbohydrates::LinkageConformerMover::apply(), protocols::abinitio::KinematicAbinitio::apply(), protocols::helical_bundle::BundleGridSampler::apply(), protocols::simple_moves::GenericSimulatedAnnealer::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::membrane::MPQuickRelaxMover::apply(), protocols::protein_interface_design::movers::PlaceStubMover::apply(), protocols::simple_moves::GenericMonteCarloMover::apply(), protocols::abinitio::FragmentSampler::apply(), protocols::moves::SequenceMover::apply(), protocols::abinitio::ClassicAbinitio::apply(), protocols::docking::DockingProtocol::apply(), protocols::moves::RandomMover::apply(), protocols::motif_grafting::movers::MotifGraftMover::apply(), protocols::abinitio::JumpingFoldConstraintsWrapper::apply(), protocols::fldsgn::BluePrintBDR::apply(), protocols::moves::CycleMover::apply(), protocols::forge::components::BDR::apply(), protocols::forge::remodel::RemodelMover::apply(), protocols::hbnet::HBNet::apply(), protocols::forge::remodel::RemodelLoopMover::apply(), protocols::forge::components::VarLengthBuild::apply(), protocols::rosetta_scripts::ParsedProtocol::apply_filter(), protocols::cyclic_peptide::ThreefoldLinkerMover::asymmetric_apply(), protocols::abinitio::abscript::AbscriptLoopCloserCM::attempt_ccd(), protocols::anchored_design::AnchoredDesignMover::filter(), protocols::rosetta_scripts::ParsedProtocol::finish_protocol(), protocols::rosetta_scripts::AdditionalOutputWrapper::generate_pose(), protocols::rosetta_scripts::MultipleOutputWrapper::generate_pose(), protocols::motif_grafting::movers::MotifGraftMover::generate_scaffold_matches(), protocols::simple_moves::MergePDBMover::get_additional_output(), protocols::pose_length_moves::InsertResMover::get_additional_output(), protocols::rosetta_scripts::ParsedProtocol::get_additional_output(), protocols::motif_grafting::movers::MotifGraftMover::get_additional_output(), protocols::pose_length_moves::NearNativeLoopCloser::get_additional_output_with_rmsd(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::model_loop(), protocols::match::MatcherMover::process_pose(), and protocols::cyclic_peptide::ThreefoldLinkerMover::symmetric_apply().
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virtual |
setter for native poses contained for rms -— we should get rid of this method? it is widely used, but a bit unsafe
Reimplemented in protocols::moves::TrialMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::moves::MoverContainer, and protocols::stepwise::monte_carlo::StepWiseMonteCarlo.
References native_pose_.
Referenced by protocols::docking::stateless::SaneDockingProtocol::apply(), protocols::enzdes::EnzdesFixBBProtocol::apply(), protocols::protein_interface_design::movers::BackrubDDMover::apply(), protocols::loophash::Mover_LoopHashRefine::apply(), protocols::enzdes::EnzdesFlexBBProtocol::apply(), protocols::flexpep_docking::FlexPepDockingProtocol::apply(), protocols::protein_interface_design::movers::LoopMoverFromCommandLine::apply(), protocols::protein_interface_design::movers::LoopRemodel::apply(), protocols::antibody::RefineOneCDRLoop::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::relax::FastRelax::apply(), protocols::docking::DockingProtocol::apply(), protocols::LoopRefine::apply(), protocols::enzdes::EnzdesBaseProtocol::EnzdesBaseProtocol(), protocols::antibody::GraftCDRLoopsProtocol::finalize_setup(), protocols::antibody::AntibodyModelerProtocol::finalize_setup(), protocols::stepwise::sampler::protein::get_basic_protein_sampler(), protocols::antibody::GraftCDRLoopsProtocol::init_from_options(), protocols::antibody::AntibodyModelerProtocol::init_from_options(), protocols::docking::DockingProtocol::init_from_options(), protocols::jobdist::main_plain_mover(), protocols::flexpep_docking::FlexPepDockingProtocol::parse_my_tag(), protocols::symmetric_docking::SymDockProtocol::register_options(), protocols::relax::WorkUnit_BatchRelax::run(), protocols::jd2::set_native_in_mover(), protocols::moves::MoverContainer::set_native_pose(), protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::set_native_pose(), protocols::moves::TrialMover::set_native_pose(), protocols::abinitio::AbrelaxApplication::setup_fold(), protocols::stepwise::modeler::StepWiseConnectionSampler::StepWiseConnectionSampler(), protocols::stepwise::modeler::StepWiseMinimizer::StepWiseMinimizer(), and protocols::jobdist::universal_main().
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inline |
References type_.
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virtual |
Outputs details about the Mover, including current settings.
Ideally, a child Mover should call Mover.show() and add additional information particular to that Mover.
Reimplemented in protocols::moves::PyMOLMover, protocols::rigid::RigidBodyRandomizeMover, protocols::simple_moves::LoggedFragmentMover, protocols::docking::SlideIntoContact, protocols::antibody::design::AntibodyDesignMover, protocols::docking::FaDockingSlideIntoContact, protocols::docking::DockingProtocol, protocols::docking::DockingSlideIntoContact, protocols::rigid::RigidBodyPerturbMover, protocols::simple_moves::ClassicFragmentMover, protocols::carbohydrates::SimpleGlycosylateMover, protocols::antibody::AntibodyModelerProtocol, protocols::carbohydrates::LinkageConformerMover, protocols::docking::TemperedDocking, protocols::simple_moves::MinMover, protocols::farna::RNAThreadAndMinimizeMover, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::carbohydrates::GlycanRelaxMover, protocols::antibody::GraftCDRLoopsProtocol, protocols::farna::RNA_FragmentMonteCarlo, protocols::simple_moves::PackRotamersMover, protocols::canonical_sampling::HamiltonianExchange, protocols::docking::DockingLowRes, protocols::loops::loop_closure::ccd::CCDLoopClosureMover, protocols::docking::DockMCMCycle, protocols::rigid::RigidBodyMover, protocols::antibody::snugdock::SnugDock, protocols::cyclic_peptide::ThreefoldLinkerMover, protocols::simple_moves::RotamerTrialsMover, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::simple_moves::BBDihedralSamplerMover, protocols::simple_moves::BoltzmannRotamerMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::docking::DockSetupMover, protocols::simple_moves::ConvertRealToVirtualMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycle, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::simple_moves::ConvertVirtualToRealMover, protocols::simple_moves::BackboneMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD, protocols::simple_moves::PertMinMover, protocols::antibody::AntibodyNumberingConverterMover, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::antibody::snugdock::SnugDockProtocol, protocols::loops::loop_mover::refine::RepackTrial, protocols::antibody::CDRsMinPackMin, protocols::denovo_design::movers::FoldTreeFromFoldGraphMover, protocols::loops::loop_mover::refine::LoopMover_Refine_KIC, protocols::recces::scratch::ThermalMinimizer, protocols::recces::scratch::ThermalSamplingMover, protocols::simple_moves::CstInfoMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::backbone_moves::local_backbone_mover::LocalBackboneMover, protocols::docking::ConformerSwitchMover, protocols::surface_docking::SurfaceDockingProtocol, protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover, protocols::docking::DockingLowResEnsemble, protocols::membrane::benchmark::SampleTiltAngles, protocols::simple_moves::CopyRotamerMover, protocols::simple_moves::ReturnSidechainMover, protocols::cyclic_peptide::SymmetricCycpepAlign, protocols::farna::RNAIdealizeMover, protocols::membrane::MPLipidAccessibility, protocols::aa_composition::AddHelixSequenceConstraintsMover, protocols::docking::EllipsoidalRandomizationMover, protocols::simple_moves::RingConformationMover, protocols::moves::FilterReportAsPoseExtraScoresMover, protocols::denovo_design::movers::BridgeChainsMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC, protocols::farna::RNA_DeNovoProtocol, protocols::membrane::HelixFromSequence, protocols::denovo_design::movers::SealFoldTreeMover, protocols::surface_docking::CentroidRelaxMover, protocols::denovo_design::movers::AlignResiduesMover, protocols::denovo_design::movers::AddSegmentDataMover, protocols::denovo_design::movers::MakeAsymmetricStructureDataMover, protocols::denovo_design::movers::SetResidueAliasMover, protocols::enzymatic_movers::EnzymaticMover, protocols::farna::movers::RNA_Minimizer, protocols::simple_moves::SwitchResidueTypeSetMover, and protocols::membrane::benchmark::MakeCanonicalHelix.
References get_current_tag(), get_name(), and get_type().
Referenced by protocols::abinitio::AbrelaxMover::apply(), protocols::topology_broker::EXCN_TopologyBroker::show(), protocols::noesy_assign::EXCN_NoesyAssign::show(), protocols::membrane::benchmark::MakeCanonicalHelix::show(), protocols::simple_moves::SwitchResidueTypeSetMover::show(), protocols::denovo_design::movers::SetResidueAliasMover::show(), protocols::enzymatic_movers::EnzymaticMover::show(), protocols::denovo_design::movers::MakeAsymmetricStructureDataMover::show(), protocols::denovo_design::movers::AddSegmentDataMover::show(), protocols::denovo_design::movers::AlignResiduesMover::show(), protocols::denovo_design::movers::SealFoldTreeMover::show(), protocols::surface_docking::CentroidRelaxMover::show(), protocols::membrane::HelixFromSequence::show(), protocols::denovo_design::movers::BridgeChainsMover::show(), protocols::moves::FilterReportAsPoseExtraScoresMover::show(), protocols::aa_composition::AddHelixSequenceConstraintsMover::show(), protocols::simple_moves::RingConformationMover::show(), protocols::farna::RNAIdealizeMover::show(), protocols::cyclic_peptide::SymmetricCycpepAlign::show(), protocols::membrane::MPLipidAccessibility::show(), protocols::denovo_design::movers::DeclareStructureDataCovalentBondMover::show(), protocols::simple_moves::CopyRotamerMover::show(), protocols::simple_moves::ReturnSidechainMover::show(), protocols::membrane::benchmark::SampleTiltAngles::show(), protocols::backbone_moves::local_backbone_mover::LocalBackboneMover::show(), protocols::surface_docking::SurfaceDockingProtocol::show(), protocols::simple_moves::CstInfoMover::show(), protocols::recces::scratch::ThermalSamplingMover::show(), protocols::denovo_design::movers::FoldTreeFromFoldGraphMover::show(), protocols::recces::scratch::ThermalMinimizer::show(), protocols::antibody::AntibodyNumberingConverterMover::show(), protocols::simple_moves::PertMinMover::show(), protocols::simple_moves::BackboneMover::show(), protocols::simple_moves::ConvertVirtualToRealMover::show(), protocols::simple_moves::ConvertRealToVirtualMover::show(), protocols::simple_moves::BBDihedralSamplerMover::show(), protocols::simple_moves::RotamerTrialsMinMover::show(), protocols::simple_moves::BoltzmannRotamerMover::show(), core::fragment::SecstructSRFD::show(), protocols::simple_moves::RotamerTrialsMover::show(), protocols::cyclic_peptide::ThreefoldLinkerMover::show(), protocols::simple_moves::PackRotamersMover::show(), protocols::carbohydrates::GlycanRelaxMover::show(), protocols::farna::RNAThreadAndMinimizeMover::show(), protocols::simple_moves::MinMover::show(), protocols::carbohydrates::LinkageConformerMover::show(), protocols::carbohydrates::SimpleGlycosylateMover::show(), protocols::simple_moves::ClassicFragmentMover::show(), core::fragment::DownJumpSRFD::show(), and protocols::moves::PyMOLMover::show().
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: Unit test support function. Apply one move to a given pose. Allows extra test specific functions to be called before applying
Reimplemented in protocols::simple_moves::ShearMover, protocols::simple_moves::SmallMover, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::simple_moves::ScoreMover, protocols::contact_map::ContactMap, and protocols::moves::NullMover.
References apply().
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References type_.
Referenced by protocols::simple_moves::a3b_hbs::A3BHbsPatcher::A3BHbsPatcher(), protocols::dna::DnaInterfacePacker::add_complementary_sequence(), protocols::anchored_design::AnchoredDesignMover::AnchoredDesignMover(), protocols::anchored_design::AnchoredPerturbMover::AnchoredPerturbMover(), protocols::anchored_design::AnchoredRefineMover::AnchoredRefineMover(), protocols::simple_moves::BackboneMover::angle_max(), protocols::antibody::design::AntibodyDesignProtocol::AntibodyDesignProtocol(), protocols::antibody_legacy::AntibodyModeler::AntibodyModeler(), protocols::enzdes::BackboneSampler::apply(), protocols::protein_interface_design::movers::BackrubDDMover::apply(), protocols::md::CartesianMD::apply(), protocols::moves::JumpOutMover::apply(), protocols::simple_moves::BackboneMover::apply(), protocols::simple_moves::BoltzmannRotamerMover::apply(), protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover::apply(), protocols::simple_moves::sidechain_moves::SidechainMCMover::apply(), protocols::moves::SequenceMover::apply(), protocols::moves::RandomMover::apply(), protocols::simple_moves::BackboneMover::BackboneMover(), protocols::simple_moves::BBConRotMover::BBConRotMover(), protocols::simple_moves::BBG8T3AMover::BBG8T3AMover(), protocols::simple_moves::BoltzmannRotamerMover::BoltzmannRotamerMover(), protocols::simple_moves::chiral::ChiralMover::ChiralMover(), protocols::hybridization::ChunkTrialMover::ChunkTrialMover(), protocols::abinitio::ClassicAbinitio::ClassicAbinitio(), protocols::ligand_docking::ComputeLigandRDF::compute_rdf(), protocols::docking::ConformerSwitchMover::ConformerSwitchMover(), protocols::abinitio::ConstraintFragmentSampler::ConstraintFragmentSampler(), protocols::simple_moves::CoupledMover::CoupledMover(), protocols::denovo_design::movers::BuildDeNovoBackboneMover::create_loops(), protocols::protein_interface_design::movers::TaskAwareCsts::cst_type(), protocols::docking::DockingHighResLegacy::DockingHighResLegacy(), protocols::docking::DockingLowResEnsemble::DockingLowResEnsemble(), protocols::docking::DockMCMCycle::DockMCMCycle(), protocols::simple_moves::EnergyCutRotamerTrialsMinMover::EnergyCutRotamerTrialsMinMover(), protocols::simple_moves::EnergyCutRotamerTrialsMover::EnergyCutRotamerTrialsMover(), protocols::enzdes::EnzdesBaseProtocol::EnzdesBaseProtocol(), protocols::simple_moves::symmetry::FaSymDockingSlideTogether::FaSymDockingSlideTogether(), protocols::floppy_tail::FloppyTailMover::FloppyTailMover(), protocols::abinitio::FoldConstraints::FoldConstraints(), protocols::simple_moves::FragmentMover::FragmentMover(), protocols::abinitio::FragmentSampler::FragmentSampler(), protocols::simple_moves::AddCavitiesMover::get_closest_heavy_atom(), protocols::antibody::snugdock::SnugDockProtocol::get_name(), protocols::loops::loop_mover::refine::LoopRefineInnerCycle::get_name(), protocols::docking::DockingLowRes::get_name(), protocols::simple_moves::hbs::HbsPatcher::HbsPatcher(), protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::init(), protocols::antibody::H3CterInsert::init(), protocols::antibody::snugdock::SnugDockProtocol::init(), protocols::docking::DockMCMProtocol::init(), protocols::simple_moves::BBGaussianMover::init(), protocols::surface_docking::CentroidRelaxMover::init(), protocols::surface_docking::SurfaceDockingProtocol::init(), protocols::enzymatic_movers::GlycosyltransferaseMover::init(), protocols::loops::loop_mover::refine::RepackTrial::init(), protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::init(), protocols::loops::loop_mover::refine::ShearMinCCDTrial::init(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::init(), protocols::antibody::snugdock::SnugDock::init(), protocols::loops::loop_mover::refine::LoopRefineInnerCycle::init(), protocols::antibody::GraftCDRLoopsProtocol::init(), protocols::simple_moves::RingConformationMover::init(), protocols::antibody::ModelCDRH3::init(), protocols::docking::DockingLowRes::init(), protocols::docking::DockingHighRes::init(), protocols::antibody::AntibodyModelerProtocol::init(), protocols::enzymatic_movers::EnzymaticMover::init(), protocols::loops::loop_closure::ccd::CCDLoopClosureMover::init(), protocols::hybridization::InsertChunkMover::InsertChunkMover(), protocols::analysis::InterfaceAnalyzerMover::InterfaceAnalyzerMover(), protocols::abinitio::JumpingFoldConstraintsWrapper::JumpingFoldConstraintsWrapper(), protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover::JumpRotamerSidechainMover(), protocols::abinitio::KinematicAbinitio::KinematicAbinitio(), protocols::analysis::LoopAnalyzerMover::LoopAnalyzerMover(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD::LoopMover_Perturb_CCD(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::LoopMover_Perturb_KIC(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD::LoopMover_Perturb_QuickCCD(), protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub::LoopMover_Refine_Backrub(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::LoopMover_Refine_CCD(), protocols::loop_build::LoopMover_SlidingWindow::LoopMover_SlidingWindow(), protocols::ligand_docking::HighResDocker::make_packer_task_from_vector(), protocols::moves::MCShowMover::MCShowMover(), protocols::dna::DnaInterfacePacker::measure_bp_specificities(), protocols::abinitio::MembraneAbinitio::MembraneAbinitio(), protocols::canonical_sampling::TrialCounterObserver::observe_after_metropolis(), protocols::simple_moves::oop::OopDPuckMinusMover::OopDPuckMinusMover(), protocols::simple_moves::oop::OopDPuckPlusMover::OopDPuckPlusMover(), protocols::simple_moves::oop::OopMover::OopMover(), protocols::simple_moves::oop::OopPatcher::OopPatcher(), protocols::simple_moves::oop::OopPuckMinusMover::OopPuckMinusMover(), protocols::simple_moves::oop::OopPuckPlusMover::OopPuckPlusMover(), protocols::simple_moves::oop::OopRandomPuckMover::OopRandomPuckMover(), protocols::simple_moves::oop::OopRandomSmallMover::OopRandomSmallMover(), protocols::denovo_design::movers::BuildDeNovoBackboneMover::parse_filters(), protocols::denovo_design::movers::BuildDeNovoBackboneMover::parse_movers(), protocols::canonical_sampling::MetricRecorder::parse_my_tag(), protocols::moves::PDBDumpMover::PDBDumpMover(), protocols::simple_moves::PeptideStapleMover::PeptideStapleMover(), protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover::PerturbChiSidechainMover(), protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover::PerturbRotamerSidechainMover(), protocols::moves::ProfilerMover::ProfilerMover(), protocols::farna::movers::RNA_FragmentMover::random_fragment_insertion(), protocols::anchored_design::AnchoredDesignMover::randomize_input_sequence(), protocols::ligand_docking::MinimizeBackbone::restrain_protein_Calphas(), protocols::ligand_docking::restrict_to_protein_residues(), protocols::simple_moves::ReturnSidechainMover::ReturnSidechainMover(), protocols::rigid::RigidBodyDeterministicSpinMover::RigidBodyDeterministicSpinMover(), protocols::rigid::RigidBodyDofPerturbMover::RigidBodyDofPerturbMover(), protocols::rigid::RigidBodyDofRandomizeMover::RigidBodyDofRandomizeMover(), protocols::rigid::RigidBodyDofRandomTransMover::RigidBodyDofRandomTransMover(), protocols::rigid::RigidBodyDofSeqPerturbMover::RigidBodyDofSeqPerturbMover(), protocols::rigid::RigidBodyDofSeqRandomizeMover::RigidBodyDofSeqRandomizeMover(), protocols::rigid::RigidBodyDofSeqTransMover::RigidBodyDofSeqTransMover(), protocols::rigid::RigidBodyDofTransMover::RigidBodyDofTransMover(), protocols::rigid::RigidBodyPerturbNoCenterMover::RigidBodyPerturbNoCenterMover(), protocols::rigid::RigidBodyRandomizeMover::RigidBodyRandomizeMover(), protocols::rigid::RigidBodySpinMover::RigidBodySpinMover(), protocols::rigid::RigidBodyTiltMover::RigidBodyTiltMover(), protocols::rigid::RigidBodyTransMover::RigidBodyTransMover(), protocols::rigid::RollMover::RollMover(), protocols::simple_moves::RotamerTrialsMinMover::RotamerTrialsMinMover(), protocols::simple_moves::RotamerTrialsMover::RotamerTrialsMover(), protocols::rigid::RotateJumpAxisMover::RotateJumpAxisMover(), protocols::cyclic_peptide::TryDisulfPermutations::set_mintype(), protocols::abinitio::abscript::FragmentCM::set_mover(), protocols::simple_moves::GenericMonteCarloMover::set_sampletype(), protocols::helical_bundle::MakeBundleHelix::set_tail_dihedrals(), protocols::surface_docking::FullatomRelaxMover::setup_defaults(), protocols::simple_moves::ShearMover::ShearMover(), protocols::simple_moves::ShortBackrubMover::ShortBackrubMover(), protocols::docking::SidechainMinMover::SidechainMinMover(), protocols::simple_moves::SmallMover::SmallMover(), protocols::surface_docking::SurfaceOrientMover::SurfaceOrientMover(), protocols::symmetric_docking::SymDockingHiRes::SymDockingHiRes(), protocols::simple_moves::symmetry::SymDockingInitialPerturbation::SymDockingInitialPerturbation(), protocols::symmetric_docking::SymDockingLowRes::SymDockingLowRes(), protocols::simple_moves::symmetry::SymDockingSlideIntoContact::SymDockingSlideIntoContact(), protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover::SymEnergyCutRotamerTrialsMover(), protocols::simple_moves::symmetry::SymRotamerTrialsMover::SymRotamerTrialsMover(), protocols::simple_moves::TaskAwareMinMover::TaskAwareMinMover(), protocols::simple_moves::TorsionDOFMover::TorsionDOFMover(), protocols::simple_moves::triazolamer::TriazolamerMover::TriazolamerMover(), protocols::simple_moves::triazolamer::TriazolamerRandomSmallMover::TriazolamerRandomSmallMover(), protocols::rigid::UniformSphereTransMover::UniformSphereTransMover(), protocols::backrub::BackrubSidechainMover::update_type(), protocols::simple_moves::sidechain_moves::SidechainMover::update_type(), protocols::hybridization::WeightedFragmentSmoothTrialMover::WeightedFragmentSmoothTrialMover(), and protocols::hybridization::WeightedFragmentTrialMover::WeightedFragmentTrialMover().
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References type_.
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this field can be NULL or it refers to the current JOB this mover is working on.
Referenced by get_current_job(), operator=(), and set_current_job().
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Referenced by get_current_tag(), operator=(), and set_current_tag().
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miscellaneous info: optional notes about mover results. Fed to Job by JobDistributor (jd2), allowing JobOutputters to optionally report this information in some way.
Referenced by clear_info(), and info().
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Referenced by get_input_pose(), operator=(), and set_input_pose().
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used to track if movers fail their filters - jobdist::BasicJob Distributor queries for this value
Referenced by get_last_move_status(), operator=(), reset_status(), and set_last_move_status().
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Referenced by get_native_pose(), operator=(), and set_native_pose().
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Referenced by get_type(), operator=(), set_type(), and type().