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protocols::moves::Mover Class Referenceabstract

: A mover is an object that can apply a conformational change to a pose More...

#include <Mover.hh>

Inherits utility::pointer::ReferenceCount.

Inherited by protocols::abinitio::AbrelaxMover, 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::antibody2::AntibodyModelerProtocol, protocols::antibody2::CDRsMinPackMin, protocols::antibody2::CloseOneCDRLoop, protocols::antibody2::GraftCDRLoopsProtocol, protocols::antibody2::GraftOneCDRLoop, protocols::antibody2::H3CterInsert, protocols::antibody2::H3PerturbCCD, protocols::antibody2::H3RefineCCD, protocols::antibody2::LHRepulsiveRamp, protocols::antibody2::LHRepulsiveRampLegacy, protocols::antibody2::LHSnugFitLegacy, protocols::antibody2::ModelCDRH3, protocols::antibody2::RefineBetaBarrel, protocols::antibody2::RefineOneCDRLoop, protocols::antibody2::RefineOneCDRLoopCentroid, protocols::antibody2::SnugDockProtocol, protocols::antibody::AntibodyModeler, protocols::antibody::CDRH3Modeler, protocols::antibody::CloseOneMover, protocols::antibody::GraftMover, protocols::antibody::GraftOneMover, protocols::antibody::LoopRlxMover, protocols::canonical_sampling::CanonicalSamplingMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::canonical_sampling::ThermodynamicMover, protocols::canonical_sampling::ThermodynamicObserver, protocols::cluster::GatherPosesMover, protocols::coarse_rna::CoarseRNA_DeNovoProtocol, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::comparative_modeling::ExtraThreadingMover, protocols::comparative_modeling::LoopRelaxMover, protocols::comparative_modeling::LoopRelaxThreadingMover, protocols::comparative_modeling::MultiThreadingMover, protocols::comparative_modeling::RecoverSideChainsMover, protocols::comparative_modeling::StealLigandMover, protocols::comparative_modeling::StealSideChainsMover, protocols::comparative_modeling::ThreadingMover, protocols::contact_map::ContactMap, protocols::ddg::ddGMover, protocols::design_opt::GreedyOptMutationMover, protocols::design_opt::ParetoOptMutationMover, 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::FaDockingSlideIntoContact, protocols::docking::TemperedDocking, protocols::domain_assembly::AddAssemblyConstraints, protocols::domain_assembly::AssembleLinkerMover, protocols::domain_assembly::CombineChainsMover, protocols::domain_assembly::PostDockAssemblyScorer, protocols::electron_density::SetupForDensityScoringMover, protocols::enzdes::AddOrRemoveMatchCsts, protocols::enzdes::EnzRepackMinimize, protocols::enzdes::ModifyStoredRBConfs, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::enzdes::RepackLigandSiteWithoutLigandMover, 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::RemoveCsts, protocols::forge::remodel::RemodelAccumulator, protocols::forge::remodel::RemodelConstraintGenerator, protocols::forge::remodel::RemodelDesignMover, protocols::forge::remodel::RemodelLoopMover, protocols::forge::remodel::RemodelMover, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::grafting::GraftMoverBase, protocols::hotspot_hashing::movers::PlaceProbeMover [virtual], protocols::hotspot_hashing::movers::PlaceSurfaceProbe [virtual], protocols::hybridization::CartesianHybridize, protocols::hybridization::CartesianSampler, protocols::hybridization::ChunkTrialMover, protocols::hybridization::DomainAssembly, protocols::hybridization::FoldTreeHybridize, protocols::hybridization::HybridizeProtocol, protocols::hybridization::InsertChunkMover, protocols::hybridization::WeightedFragmentSmoothTrialMover, protocols::hybridization::WeightedFragmentTrialMover, protocols::idealize::IdealizeMover, protocols::ligand_docking::AddHydrogen, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::CompoundTranslate, protocols::ligand_docking::FinalMinimizer, protocols::ligand_docking::GrowLigand, protocols::ligand_docking::HighResDocker, 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::Translate, protocols::ligand_docking::UnconstrainedTorsionsMover, protocols::loop_build::LoopBuildMover, 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::CcdMover, 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::match::MatcherMover, protocols::medal::MedalExchangeMover, protocols::medal::MedalMover, protocols::motifs::MotifDnaPacker, protocols::moves::CanonicalSamplingMover, protocols::moves::ChangeFoldTreeMover, protocols::moves::CompositionMover, protocols::moves::CyclicMover, protocols::moves::DsspMover, protocols::moves::FilterMover, protocols::moves::IfMover, protocols::moves::IteratedConvergenceMover, protocols::moves::JumpOutMover, protocols::moves::MCShowMover, protocols::moves::MonteCarloUtil, protocols::moves::MoverContainer, protocols::moves::NullMover, protocols::moves::PDBDumpMover, protocols::moves::ProfilerMover, protocols::moves::PyMolMover, protocols::moves::RampingMover, protocols::moves::RepeatMover, protocols::moves::StructureRestrictor, protocols::moves::TrialMover, protocols::moves::WhileMover, protocols::noesy_assign::DistanceScoreMover, protocols::nonlocal::BiasedFragmentMover, protocols::nonlocal::HelixRotate, protocols::nonlocal::SheetTranslate, protocols::nonlocal::SingleFragmentMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, 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::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::NullDesignMover, 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::Splice, 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::RBSegmentMover, protocols::rbsegment_relax::RBSegmentRelax, protocols::RBSegmentRelaxImpl, protocols::relax::RelaxProtocolBase, 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::rna::MultipleDomainMover, protocols::rna::RNA_DeNovoProtocol, protocols::rna::RNA_FragmentMover, protocols::rna::RNA_HelixAssembler, protocols::rna::RNA_LoopCloser, protocols::rna::RNA_Minimizer, protocols::rna::RNA_Relaxer, 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::PlaceFragments, protocols::seeded_abinitio::SeedFoldTree, protocols::seeded_abinitio::SeedSetupMover, protocols::seeded_abinitio::SegmentHybridizer, protocols::seeded_abinitio::SwapSegment, protocols::simple_moves::AddCavitiesMover, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockMoveRbJumpMover, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover, protocols::simple_moves::BBGaussianMover, protocols::simple_moves::carbohydrates::RingConformationMover, protocols::simple_moves::chiral::ChiralMover, protocols::simple_moves::ClearConstraintsMover, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::ConstrainToIdealMover, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::CutChainMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::DME_FilterMover, protocols::simple_moves::DumpPdb, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::FragmentMover, protocols::simple_moves::GenericMonteCarloMover, protocols::simple_moves::GreenPacker, protocols::simple_moves::hbs::HbsPatcher, protocols::simple_moves::HelicalPeptideLengthMover, protocols::simple_moves::LoadPDBMover, protocols::simple_moves::LoadUnboundRotMover, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::MembraneTopology, protocols::simple_moves::MinMover, protocols::simple_moves::MinPackMover, protocols::simple_moves::MissingDensityToJumpMover, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::MonteCarloTest, protocols::simple_moves::MutateResidue, protocols::simple_moves::O2M_MutateMover, 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::ProlineFixMover, protocols::simple_moves::rational_mc::RationalMonteCarlo, protocols::simple_moves::RepackSidechainsMover, protocols::simple_moves::RepulsiveOnlyMover, protocols::simple_moves::ReturnSidechainMover, 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::sidechain_moves::SetChiMover, 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::star::StarAbinitio, protocols::surface_docking::CentroidRelaxMover, protocols::surface_docking::FaSlideAwayFromSurface, protocols::surface_docking::FaSlideIntoSurface, protocols::surface_docking::FullatomRelaxMover, protocols::surface_docking::SlideIntoSurface, protocols::surface_docking::SurfaceDockingProtocol, protocols::surface_docking::SurfaceOrientMover, protocols::swa::monte_carlo::RNA_AddMover, protocols::swa::monte_carlo::RNA_AddOrDeleteMover, protocols::swa::monte_carlo::RNA_DeleteMover, protocols::swa::monte_carlo::RNA_O2StarMover, protocols::swa::monte_carlo::RNA_SWA_MonteCarloMover, protocols::swa::monte_carlo::RNA_TorsionMover, protocols::swa::protein::StepWiseProteinCCD_Closer, protocols::swa::protein::StepWiseProteinLoopBridger, protocols::swa::protein::StepWiseProteinPacker, protocols::swa::protein::StepWiseProteinPoseMinimizer, protocols::swa::protein::StepWiseProteinPoseSetup, protocols::swa::protein::StepWiseProteinResidueSampler, protocols::swa::protein::StepWiseProteinScreener, protocols::swa::rna::RNA_AnalyticLoopCloser, protocols::swa::rna::RNA_LoopCloseSampler, protocols::swa::rna::StepWiseRNA_AnalyticalLoopCloseSampler, protocols::swa::rna::StepWiseRNA_Minimizer, protocols::swa::rna::StepWiseRNA_PoseSetup, protocols::swa::rna::StepWiseRNA_ResidueSampler, protocols::swa::StepWisePoseSetup, protocols::swa::StepWiseResidueSampler, protocols::swa::StepWiseScreener, 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::ub_e2c::ubi_e2c_modeler, and protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover.

Collaboration diagram for protocols::moves::Mover:
Collaboration graph
[legend]

Public Types

typedef utility::tag::TagPtr TagPtr
 
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 ()
 
virtual ~Mover ()
 
virtual MoverSP create ()
 
virtual void apply (core::io::serialization::PipeMap &pmap)
 
virtual void parse_state (SerializableState const &state)
 
virtual void parse_def (utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks, MoverCacheSP cache)
 
virtual void save_state (SerializableState &state)
 
 Mover (std::string const &type_name)
 sets the type for a mover; name_ has been removed (2010/05/14) More...
 
 Mover (Mover const &other)
 
Moveroperator= (Mover const &other)
 assignment operator More...
 
virtual core::Real last_proposal_density_ratio ()
 
virtual void apply (Pose &)=0
 
std::string const & type () const
 
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...
 
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
 clone has to be overridden only if clone invocation is expected. More...
 
virtual void parse_my_tag (TagPtr const tag, 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 Stringsinfo ()
 non-const accessor More...
 
virtual Strings const & info () const
 const accessor More...
 
virtual bool reinitialize_for_each_job () const
 this function informs 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
 this function informs 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
 this is like clone(), except it generates a new mover object freshly created with the default ctor. This function should be pure virtual but that would disrupt the code base; MAKE SURE YOU DEFINE IT if you want to have your mover be a protocol handed to the job distributor (august 08 vintage). More...
 
void set_current_job (protocols::jobdist::BasicJobCOP job)
 
jobdist::BasicJobCOP get_current_job () const
 

Static Public Member Functions

static std::string name ()
 
static void register_options ()
 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. 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...
 

Detailed Description

: A mover is an object that can apply a conformational change to a pose

Detailed::
Each derived class should define its own apply() statement DO NOT JUST GO ADDING FUNCTIONS TO THIS CLASS. YOU IMPLY EVERYONE WHO DERIVES FROM IT IS OBLIGATED TO IMPLEMENT THAT FUNCTION, OR, IF THEY DON'T, THAT THEY ARE IMPLICTLY AGREEING THAT THE BASE CLASS IMPLEMENTATION IS CORRECT.
Authors
Monica Berrondo, Jeff Gray, Steven Lewis, Sarel Fleishman
Last Modified:

Definition at line 86 of file Mover.hh.

Member Typedef Documentation

Definition at line 91 of file Mover.hh.

Definition at line 89 of file Mover.hh.

Definition at line 90 of file Mover.hh.

typedef std::list< std::string > protocols::moves::Mover::Strings

Definition at line 92 of file Mover.hh.

typedef utility::tag::TagPtr protocols::moves::Mover::TagPtr

Definition at line 88 of file Mover.hh.

Constructor & Destructor Documentation

protocols::moves::Mover::Mover ( )
protocols::moves::Mover::~Mover ( )
virtual

Definition at line 95 of file Mover.cc.

protocols::moves::Mover::Mover ( std::string const &  type_name)

sets the type for a mover; name_ has been removed (2010/05/14)

Definition at line 97 of file Mover.cc.

protocols::moves::Mover::Mover ( Mover const &  other)

Definition at line 106 of file Mover.cc.

Member Function Documentation

void protocols::moves::Mover::apply ( core::io::serialization::PipeMap pmap)
virtual
virtual void protocols::moves::Mover::apply ( Pose )
pure virtual

Implemented in protocols::abinitio::Stage1Sampler, protocols::rigid::RigidBodyDofSeqPerturbMover, protocols::rigid::RigidBodyDofPerturbMover, protocols::rigid::RigidBodyDofRandomTransMover, protocols::rigid::RigidBodyDofSeqTransMover, protocols::rigid::RigidBodyDofTransMover, protocols::rigid::RigidBodyDofSeqRandomizeMover, protocols::forge::components::VarLengthBuild, protocols::rigid::RigidBodyDofRandomizeMover, protocols::rigid::UniformSphereTransMover, protocols::rigid::RigidBodyTransMover, protocols::rbsegment_relax::StrandTwistingMover, protocols::forge::remodel::RemodelLoopMover, protocols::rigid::RigidBodyDeterministicSpinMover, protocols::forge::remodel::RemodelMover, protocols::rigid::RigidBodySpinMover, protocols::forge::components::BDR, protocols::flxbb::FlxbbDesignPack, protocols::rbsegment_relax::GaussianRBSegmentMover, protocols::cluster::AssignToClustersMover, protocols::rigid::RigidBodyRandomizeMover, protocols::moves::PyMolMover, protocols::LoopRefine, protocols::anchored_design::AnchoredRefineMover, protocols::rbsegment_relax::SequenceShiftMover, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::moves::CycleMover, protocols::fldsgn::BluePrintBDR, protocols::enzdes::RepackLigandSiteWithoutLigandMover, protocols::simple_moves::GreenPacker, protocols::antibody::LoopRlxMover, protocols::rbsegment_relax::HelicalGaussianMover, protocols::abinitio::JumpingFoldConstraintsWrapper, protocols::canonical_sampling::MetricRecorder, protocols::enzdes::DiversifyStoredRBConfs, protocols::simple_moves::MinMover, protocols::moves::RandomMover, protocols::anchored_design::AnchoredPerturbMover, protocols::rigid::RigidBodyPerturbMover, protocols::docking::FaDockingSlideIntoContact, protocols::simple_moves::EnergyCutRotamerTrialsMinMover, protocols::moves::RampingMover, protocols::simple_moves::EnergyCutRotamerTrialsMover, protocols::antibody::CloseOneMover, protocols::enzdes::MinimizeStoredRBConfs, protocols::abinitio::ClassicAbinitio, protocols::moves::SequenceMover, protocols::simple_moves::ClassicFragmentMover, protocols::docking::DockingProtocol, protocols::simple_moves::BBG8T3AMover, protocols::enzdes::PredesignPerturbMover, protocols::abinitio::MembraneAbinitio, protocols::features::ReportToDB, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::moves::TrialMover, protocols::docking::DockingSlideIntoContact, protocols::enzdes::ApplyRandomStoredRBConf, protocols::loops::loop_closure::ccd::CcdMover, protocols::abinitio::FragmentSampler, protocols::grafting::AnchoredGraftMover, protocols::flxbb::FlxbbDesign, protocols::hybridization::FoldTreeHybridize, protocols::fldsgn::CircularPermutation, protocols::simple_moves::GenericMonteCarloMover, protocols::antibody::GraftOneMover, protocols::relax::FastRelax, protocols::symmetric_docking::SymDockProtocol, protocols::simple_moves::symmetry::FaSymDockingSlideTogether, protocols::canonical_sampling::TrajectoryRecorder, protocols::enzdes::GenerateStoredRBConfs, protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover, protocols::abinitio::ConstraintFragmentSampler, protocols::abinitio::FoldConstraints, protocols::ddg::ddGMover, protocols::loops::loop_closure::kinematic_closure::KinematicMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::surface_docking::FaSlideAwayFromSurface, protocols::comparative_modeling::ThreadingMover, protocols::docking::DockingHighRes, protocols::moves::MCShowMover, protocols::simple_moves::sidechain_moves::SidechainMoverBase, protocols::relax::CentroidRelax, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure, protocols::simple_moves::PackRotamersMover, protocols::idealize::IdealizeMover, protocols::protein_interface_design::movers::Splice, protocols::comparative_modeling::LoopRelaxMover, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::abinitio::Protocol, protocols::docking::TemperedDocking, protocols::docking::InterfaceSidechainMinMover, protocols::rigid::RigidBodyMover, protocols::antibody::CDRH3Modeler, protocols::backrub::BackrubSidechainMover, protocols::ligand_docking::LigandBaseProtocol, protocols::symmetric_docking::SymDockingHiRes, protocols::docking::DockMCMCycle, protocols::simple_moves::symmetry::SymDockingSlideIntoContact, protocols::ligand_docking::LigandDockMain, protocols::rigid::WholeBodyRotationMover, protocols::symmetric_docking::SymInterfaceSidechainMinMover, protocols::nonlocal::SingleFragmentMover, protocols::abinitio::KinematicAbinitio, protocols::backrub::BackrubMover, protocols::canonical_sampling::CanonicalSamplingMover, protocols::ligand_docking::Rotate, protocols::comparative_modeling::MultiThreadingMover, protocols::docking::DockingLowRes, protocols::moves::ProfilerMover, protocols::relax::ClassicRelax, protocols::forge::remodel::RemodelDesignMover, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::docking::DockingHighResLegacy, protocols::docking::DockMCMProtocol, protocols::simple_moves::carbohydrates::RingConformationMover, protocols::rbsegment_relax::CCDMoveWrapper, protocols::flxbb::InterlockAroma, protocols::simple_moves::RotamerTrialsMover, protocols::simple_moves::ShakeStructureMover, protocols::surface_docking::FaSlideIntoSurface, protocols::analysis::InterfaceAnalyzerMover, protocols::antibody::GraftMover, protocols::antibody2::RefineOneCDRLoop, protocols::hybridization::ChunkTrialMover, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::match::MatcherMover, protocols::moves::CanonicalSamplingMover, protocols::abinitio::JumpingFoldConstraints, protocols::abinitio::KinematicTaskControl, protocols::hybridization::HybridizeProtocol, protocols::simple_moves::RotamerTrialsMinMover, protocols::antibody2::LHRepulsiveRampLegacy, protocols::protein_interface_design::movers::PlaceStubMover, protocols::fldsgn::MatchResiduesMover, protocols::forge::remodel::RemodelAccumulator, protocols::loops::loop_closure::ccd::CcdLoopClosureMover, protocols::moves::MonteCarloUtil, protocols::docking::DockMinMover, protocols::loophash::LoopHashLibrary, protocols::rigid::WholeBodyTranslationMover, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::antibody2::H3RefineCCD, protocols::dna::DnaInterfacePacker, protocols::loops::loop_mover::LoopMover, protocols::forge::constraints::InvrotTreeRCG, protocols::simple_moves::ScoreMover, protocols::surface_docking::CentroidRelaxMover, protocols::ligand_docking::HighResDocker, protocols::ligand_docking::Translate, protocols::LoopRebuild, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::surface_docking::FullatomRelaxMover, protocols::moves::StructureRestrictor, protocols::protein_interface_design::movers::TryRotamers, protocols::rbsegment_relax::RBSegmentMover, protocols::simple_moves::MinPackMover, protocols::simple_moves::BackboneMover, protocols::simple_moves::MonteCarloTest, protocols::hybridization::DomainAssembly, protocols::ligand_docking::Transform, protocols::rna::RNA_DeNovoProtocol, protocols::comparative_modeling::ExtraThreadingMover, protocols::ligand_docking::LigandDockProtocol, protocols::loops::loop_mover::refine::LoopMover_Refine_KIC, protocols::protein_interface_design::movers::LoopRemodel, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::moves::MoverContainer, protocols::surface_docking::SurfaceDockingProtocol, protocols::hybridization::CartesianHybridize, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::simple_filters::EvaluatedTrialMover, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::symmetry::SymDockingInitialPerturbation, protocols::docking::DockingInitialPerturbation, protocols::docking::DockSetupMover, protocols::moves::RepeatMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycle, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::docking::ConformerSwitchMover, protocols::hybridization::InsertChunkMover, protocols::rbsegment_relax::FragInsertAndAlignMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::symmetry::SymMinMover, protocols::toolbox::match_enzdes_util::AlignPoseToInvrotTreeMover, protocols::docking::SidechainMinMover, protocols::loophash::LoopHashDiversifier, protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub, protocols::moves::JumpOutMover, protocols::rbsegment_relax::RBSegmentRelax, protocols::simple_moves::ConsensusDesignMover, protocols::swa::StepWisePoseSetup, protocols::hybridization::CartesianSampler, protocols::nonlocal::BiasedFragmentMover, protocols::rigid::MembraneNormalPerturbationMover, protocols::swa::protein::StepWiseProteinResidueSampler, protocols::antibody2::H3PerturbCCD, protocols::antibody2::LHRepulsiveRamp, protocols::flexpep_docking::FlexPepDockingAbInitio, protocols::antibody2::LHSnugFitLegacy, protocols::antibody2::ModelCDRH3, protocols::antibody2::RefineOneCDRLoopCentroid, protocols::coarse_rna::CoarseRNA_DeNovoProtocol, protocols::ligand_docking::UnconstrainedTorsionsMover, protocols::loops::loop_closure::kinematic_closure::KinematicWrapper, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::moves::PDBDumpMover, protocols::simple_moves::DME_FilterMover, protocols::contact_map::ContactMap, protocols::enzdes::EnzRepackMinimize, protocols::hotspot_hashing::movers::PlaceProbeMover, protocols::ligand_docking::InterfaceScoreCalculator, protocols::loops::loop_mover::refine::RepackTrial, protocols::canonical_sampling::TemperatureController, protocols::design_opt::GreedyOptMutationMover, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::protein_interface_design::movers::DisulfideMover, protocols::simple_moves::ConstrainToIdealMover, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::RepackSidechainsMover, protocols::swa::rna::StepWiseRNA_ResidueSampler, protocols::flexpep_docking::FlexPepDockingLowRes, protocols::floppy_tail::FloppyTailMover, protocols::moves::DsspMover, protocols::protein_interface_design::movers::LoopFinder, protocols::simple_moves::BBConRotMover, protocols::simple_moves::ddG, protocols::surface_docking::SlideIntoSurface, protocols::symmetric_docking::SymDockingLowRes, protocols::antibody2::SnugDock, protocols::canonical_sampling::MetropolisHastingsMover, protocols::docking::DockingPrepackProtocol, protocols::noesy_assign::DistanceScoreMover, protocols::rna::MultipleDomainMover, protocols::simple_moves::symmetry::SymRotamerTrialsMover, protocols::surface_docking::SurfaceOrientMover, protocols::antibody2::H3CterInsert, protocols::canonical_sampling::ParallelTempering, protocols::docking::DockingEnsemblePrepackProtocol, protocols::enzdes::AddOrRemoveMatchCsts, protocols::ligand_docking::StartFrom, protocols::moves::ChangeFoldTreeMover, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::simple_moves::SaneMinMover, protocols::simple_moves::symmetry::SetupNCSMover, protocols::simple_moves::TorsionDOFMover, protocols::symmetric_docking::SymFoldandDockRbTrialMover, protocols::symmetric_docking::SymSidechainMinMover, protocols::enzdes::EnzdesFlexBBProtocol, protocols::motifs::MotifDnaPacker, protocols::rna::RNA_Relaxer, protocols::simple_moves::AddCavitiesMover, protocols::simple_moves::MutateResidue, protocols::swa::rna::StepWiseRNA_Minimizer, protocols::antibody2::CDRsMinPackMin, protocols::canonical_sampling::HamiltonianExchange, protocols::design_opt::ParetoOptMutationMover, protocols::loophash::FastGapMover, protocols::moves::FilterMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::protein_interface_design::movers::RepackMinimize, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::qsar::RenderGridsToKinemage, protocols::simple_moves::rational_mc::RationalMonteCarlo, protocols::simple_moves::ReturnSidechainMover, protocols::swa::rna::RNA_AnalyticLoopCloser, protocols::abinitio::AbrelaxMover, protocols::forge::constraints::RemoveCsts, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::rna::RNA_FragmentMover, protocols::analysis::LoopAnalyzerMover, protocols::antibody::AntibodyModeler, protocols::antibody2::AntibodyModelerProtocol, protocols::antibody2::RefineBetaBarrel, protocols::antibody2::SnugDockProtocol, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::enzdes::SecondaryMatchProtocol, protocols::forge::remodel::RemodelConstraintGenerator, protocols::loophash::Mover_LoopHashRefine, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::antibody2::GraftCDRLoopsProtocol, protocols::enzdes::ModifyStoredRBConfs, protocols::flexpack::FlexPacker, protocols::ligand_docking::Rotates, protocols::loops::loop_mover::IndependentLoopMover, protocols::moves::WhileMover, protocols::simple_moves::chiral::ChiralMover, protocols::simple_moves::FragmentMover, protocols::swa::rna::StepWiseRNA_AnalyticalLoopCloseSampler, protocols::swa::rna::StepWiseRNA_PoseSetup, protocols::swa::StepWiseScreener, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::fibril::SetupForFibrilMover, protocols::ligand_docking::MinimizeBackbone, protocols::moves::IfMover, protocols::rigid::RollMover, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover, protocols::simple_moves::MembraneTopology, protocols::simple_moves::ModifyVariantTypeMover, protocols::swa::monte_carlo::RNA_SWA_MonteCarloMover, protocols::swa::protein::StepWiseProteinPacker, protocols::swa::protein::StepWiseProteinPoseSetup, protocols::swa::StepWiseResidueSampler, protocols::anchored_design::AnchoredDesignMover, protocols::comparative_modeling::PartialThreadingMover, protocols::moves::IteratedConvergenceMover, protocols::nonlocal::HelixRotate, protocols::rosetta_scripts::ParsedProtocol, protocols::simple_moves::TaskAwareMinMover, protocols::swa::protein::StepWiseProteinScreener, protocols::hybridization::WeightedFragmentSmoothTrialMover, protocols::ligand_docking::FinalMinimizer, protocols::loophash::LoopHashRelaxProtocol, protocols::protein_interface_design::movers::BackrubDDMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::rigid::MembraneCenterPerturbationMover, protocols::rna::RNA_HelixAssembler, protocols::simple_moves::RepulsiveOnlyMover, protocols::simple_moves::SetTorsion, protocols::swa::protein::StepWiseProteinLoopBridger, protocols::dna::DnaInterfaceMultiStateDesign, protocols::domain_assembly::AssembleLinkerMover, protocols::enzdes::EnzdesFixBBProtocol, protocols::nonlocal::SheetTranslate, protocols::rna::RNA_LoopCloser, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::swa::monte_carlo::RNA_AddMover, protocols::swa::protein::StepWiseProteinPoseMinimizer, protocols::dna::DesignProteinBackboneAroundDNA, protocols::ligand_docking::SlideTogether, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::rigid::RotateJumpAxisMover, protocols::swa::monte_carlo::RNA_AddOrDeleteMover, protocols::swa::monte_carlo::RNA_O2StarMover, protocols::swa::protein::StepWiseProteinCCD_Closer, protocols::abinitio::ResolutionSwitcher, protocols::canonical_sampling::ThermodynamicObserver, protocols::dna::SeparateDnaFromNonDna, protocols::moves::CyclicMover, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::simple_moves::MissingDensityToJumpMover, protocols::simple_moves::symmetry::SymmetricRMSMover, protocols::simple_moves::TailsScoreMover, protocols::symmetric_docking::SymFoldandDockSlideTrialMover, protocols::cluster::GatherPosesMover, protocols::ligand_docking::CompoundTranslate, protocols::ligand_docking::TetherLigand, protocols::protein_interface_design::movers::LoopOver, protocols::rna::RNA_Minimizer, protocols::simple_moves::HelicalPeptideLengthMover, protocols::swa::rna::RNA_LoopCloseSampler, protocols::abinitio::DomainAssembly, protocols::ub_e2c::ubi_e2c_modeler, protocols::canonical_sampling::SimulatedTempering, protocols::domain_assembly::PostDockAssemblyScorer, protocols::enzdes::BackboneSampler, protocols::ligand_docking::AddHydrogen, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::GrowLigand, protocols::medal::MedalMover, protocols::protein_interface_design::movers::MapHotspot, protocols::simple_moves::SetReturningPackRotamersMover, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::swa::monte_carlo::RNA_TorsionMover, protocols::canonical_sampling::TemperingBase, protocols::ligand_docking::MinimizeLigand, protocols::ligand_docking::RandomConformers, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::qsar::scoring_grid::GridInitMover, protocols::simple_moves::oop::OopRandomSmallMover, protocols::swa::monte_carlo::RNA_DeleteMover, protocols::antibody2::GraftOneCDRLoop, protocols::electron_density::SetupForDensityScoringMover, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::ligand_docking::LigandDesign, protocols::ligand_docking::RigidSearchMover, protocols::loophash::LoopHashMoverWrapper, protocols::protein_interface_design::movers::VLB, protocols::rosetta_scripts::SavePoseMover, protocols::seeded_abinitio::SegmentHybridizer, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::comparative_modeling::StealLigandMover, protocols::seeded_abinitio::SeedFoldTree, protocols::simple_moves::hbs::HbsPatcher, protocols::simple_moves::oop::OopPatcher, protocols::simple_moves::oop::OopRandomPuckMover, protocols::simple_moves::ProlineFixMover, protocols::symmetric_docking::SymDockBaseProtocol, protocols::protein_interface_design::movers::BuildAlaPose, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::SpinMover, protocols::seeded_abinitio::CloseFold, protocols::simple_moves::PeptideStapleMover, protocols::symmetric_docking::SymFoldandDockMoveRbJumpMover, protocols::antibody2::CloseOneCDRLoop, protocols::dna::DnaInterfaceMinMover, protocols::domain_assembly::AddAssemblyConstraints, protocols::moves::CompositionMover, protocols::protein_interface_design::movers::SetAtomTree, protocols::seeded_abinitio::PlaceFragments, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockMoveRbJumpMover, protocols::simple_moves::PDBReloadMover, protocols::comparative_modeling::LoopRelaxThreadingMover, protocols::domain_assembly::CombineChainsMover, protocols::ligand_docking::RandomConformerMover, protocols::medal::MedalExchangeMover, protocols::moves::NullMover, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::protein_interface_design::movers::RandomMutation, protocols::rigid::RigidBodyMotionMover, protocols::simple_moves::O2M_MutateMover, protocols::simple_moves::oop::OopMover, protocols::simple_moves::symmetry::DetectSymmetry, protocols::hybridization::WeightedFragmentTrialMover, protocols::rigid::MovePoseToMembraneCenterMover, protocols::simple_moves::SuperimposeMover, protocols::simple_moves::SwitchChainOrderMover, protocols::star::StarAbinitio, protocols::analysis::PackStatMover, protocols::comparative_modeling::StealSideChainsMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::RotamerDump::RotamerDumpMover, protocols::seeded_abinitio::CAcstGenerator, protocols::seeded_abinitio::GrowPeptides, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::DumpPdb, protocols::simple_moves::LoadUnboundRotMover, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::LoopLengthChange, protocols::qsar::qsarMover, protocols::relax::MiniRelax, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::LoadPDBMover, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::SubroutineMover, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::seeded_abinitio::SwapSegment, protocols::simple_moves::CutChainMover, protocols::comparative_modeling::RecoverSideChainsMover, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::rbsegment_relax::AutoRBMover, protocols::simple_moves::SequenceProfileMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::protein_interface_design::movers::NullDesignMover, protocols::loops::FoldTreeFromLoops, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::docking::stateless::SaneDockingProtocol, protocols::simple_moves::ClearConstraintsMover, protocols::loop_build::LoopBuildMover, and protocols::RBSegmentRelaxImpl.

virtual void protocols::moves::Mover::clear_info ( )
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

Definition at line 199 of file Mover.hh.

References info_.

MoverOP protocols::moves::Mover::clone ( ) const
virtual

clone has to be overridden only if clone invocation is expected.

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::rbsegment_relax::StrandTwistingMover, protocols::rbsegment_relax::GaussianRBSegmentMover, protocols::cluster::AssignToClustersMover, protocols::simple_moves::ShearMover, protocols::cluster::ClusterPhilStyle_Loop, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::cluster::ClusterPhilStyle, protocols::rbsegment_relax::SequenceShiftMover, protocols::moves::CycleMover, protocols::simple_moves::SmallMover, protocols::rbsegment_relax::HelicalGaussianMover, protocols::forge::remodel::ResidueVicinityRCG, protocols::abinitio::JumpingFoldConstraintsWrapper, protocols::comparative_modeling::LoopRelaxMover, protocols::moves::RandomMover, protocols::enzdes::PredesignPerturbMover, protocols::moves::RampingMover, protocols::abinitio::ClassicAbinitio, protocols::abinitio::MembraneAbinitio, protocols::moves::SequenceMover, protocols::canonical_sampling::FixedTemperatureController, protocols::abinitio::FragmentSampler, protocols::simple_moves::PackRotamersMover, protocols::forge::components::VarLengthBuild, protocols::forge::remodel::RemodelLoopMover, protocols::forge::remodel::RemodelMover, protocols::relax::FastRelax, protocols::symmetric_docking::SymDockProtocol, protocols::simple_moves::GenericMonteCarloMover, protocols::cluster::EnsembleConstraints_Simple, protocols::fldsgn::BluePrintBDR, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::forge::components::BDR, protocols::abinitio::ConstraintFragmentSampler, protocols::canonical_sampling::MetricRecorder, protocols::flxbb::FlxbbDesign, protocols::abinitio::FoldConstraints, protocols::docking::DockingInitialPerturbation, protocols::simple_moves::MinPackMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::protein_interface_design::movers::Splice, protocols::docking::DockingProtocol, protocols::fldsgn::CircularPermutation, protocols::nonlocal::SingleFragmentMover, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::simple_moves::MinMover, protocols::antibody2::RefineOneCDRLoop, protocols::moves::MonteCarloUtil, protocols::forge::constraints::InverseRotamersRCG, protocols::hybridization::HybridizeProtocol, protocols::protein_interface_design::movers::TryRotamers, protocols::abinitio::KinematicAbinitio, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD, protocols::simple_moves::RepackSidechainsMover, protocols::hybridization::CartesianSampler, protocols::docking::DockMCMCycle, protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC, protocols::simple_moves::carbohydrates::RingConformationMover, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::loophash::LoopHashLibrary, protocols::simple_moves::RotamerTrialsMover, protocols::docking::DockMCMProtocol, protocols::ligand_docking::Rotate, protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD, protocols::relax::ClassicRelax, protocols::docking::DockingLowRes, protocols::abinitio::JumpingFoldConstraints, protocols::loop_build::LoopMover_SlidingWindow, protocols::loophash::LoopHashDiversifier, protocols::dna::DnaInterfacePacker, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::fldsgn::SheetConstraintsRCG, protocols::forge::constraints::InvrotTreeRCG, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::docking::DockingHighResLegacy, protocols::flxbb::InterlockAroma, protocols::simple_moves::ddG, protocols::symmetric_docking::SymDockingHiRes, protocols::analysis::InterfaceAnalyzerMover, protocols::forge::constraints::RemoveCsts, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::features::ReportToDB, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::loops::loop_mover::refine::LoopMover_Refine_KIC, protocols::protein_interface_design::movers::LoopRemodel, protocols::rna::RNA_DeNovoProtocol, protocols::rosetta_scripts::ParsedProtocol, protocols::simple_moves::symmetry::SymMinMover, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::simple_moves::ExtendedPoseMover, protocols::forge::constraints::NtoC_RCG, protocols::protein_interface_design::movers::PlaceStubMover, protocols::antibody2::H3RefineCCD, protocols::docking::DockingLowResEnsemble, protocols::forge::remodel::RemodelAccumulator, protocols::antibody2::LHRepulsiveRampLegacy, protocols::canonical_sampling::MetropolisHastingsMover, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::moves::IteratedConvergenceMover, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::relax::CentroidRelax, protocols::simple_moves::MonteCarloTest, protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover, protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover, protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover, protocols::canonical_sampling::ParallelTempering, protocols::dna::DnaInterfaceMultiStateDesign, protocols::fldsgn::MatchResiduesMover, protocols::hotspot_hashing::movers::PlaceSurfaceProbe, protocols::loops::loop_mover::refine::RepackTrial, protocols::match::MatcherMover, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::simple_moves::ConstrainToIdealMover, protocols::backrub::BackrubMover, protocols::enzdes::EnzRepackMinimize, protocols::forge::remodel::RemodelDesignMover, protocols::ligand_docking::HighResDocker, protocols::ligand_docking::Translate, protocols::LoopRebuild, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::canonical_sampling::HamiltonianExchange, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::protein_interface_design::movers::DisulfideMover, protocols::antibody2::SnugDock, protocols::design_opt::GreedyOptMutationMover, protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::SeparateDnaFromNonDna, protocols::docking::TemperedDocking, protocols::ligand_docking::Transform, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::backrub::BackrubSidechainMover, protocols::coarse_rna::CoarseRNA_DeNovoProtocol, protocols::rigid::RollMover, protocols::dna::DnaInterfaceMinMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::rbsegment_relax::FragInsertAndAlignMover, protocols::simple_moves::MutateResidue, protocols::docking::DockSetupMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::protein_interface_design::movers::LoopFinder, protocols::protein_interface_design::movers::RepackMinimize, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::antibody::AntibodyModeler, protocols::antibody2::H3PerturbCCD, protocols::antibody2::SnugDockProtocol, protocols::design_opt::ParetoOptMutationMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_Moves, protocols::nonlocal::HelixRotate, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::loophash::Mover_LoopHashRefine, protocols::protein_interface_design::movers::MapHotspot, protocols::simple_moves::symmetry::SetupNCSMover, protocols::anchored_design::AnchoredDesignMover, protocols::antibody2::LHSnugFitLegacy, protocols::idealize::IdealizeMover, protocols::nonlocal::SheetTranslate, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::TaskAwareMinMover, protocols::ligand_docking::MinimizeBackbone, protocols::loophash::LoopHashRelaxProtocol, protocols::motifs::MotifDnaPacker, protocols::moves::DsspMover, protocols::qsar::RenderGridsToKinemage, protocols::rna::MultipleDomainMover, protocols::simple_moves::MembraneTopology, protocols::simple_moves::ScoreMover, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::enzdes::AddOrRemoveMatchCsts, protocols::canonical_sampling::SimulatedTempering, protocols::contact_map::ContactMap, protocols::ligand_docking::FinalMinimizer, protocols::loophash::LoopHashMoverWrapper, protocols::moves::StructureRestrictor, protocols::protein_interface_design::movers::BackrubDDMover, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::SetTorsion, protocols::enzdes::BackboneSampler, protocols::ligand_docking::SlideTogether, protocols::moves::CyclicMover, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::protein_interface_design::movers::SpinMover, protocols::seeded_abinitio::PlaceFragments, protocols::antibody2::LHRepulsiveRamp, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::medal::MedalMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::SaneMinMover, protocols::ub_e2c::ubi_e2c_modeler, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::symmetric_docking::SymDockingLowRes, protocols::antibody2::GraftCDRLoopsProtocol, protocols::canonical_sampling::TrialCounterObserver, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::GrowLigand, protocols::loophash::FastGapMover, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::simple_moves::HelicalPeptideLengthMover, protocols::simple_moves::SuperimposeMover, protocols::swa::rna::RNA_AnalyticLoopCloser, protocols::antibody2::AntibodyModelerProtocol, protocols::ligand_docking::InterfaceScoreCalculator, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::rna::RNA_HelixAssembler, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::electron_density::SetupForDensityScoringMover, protocols::ligand_docking::LigandDesign, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::protein_interface_design::movers::VLB, protocols::rosetta_scripts::SavePoseMover, protocols::simple_moves::PDBReloadMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::moves::IfMover, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::seeded_abinitio::SeedFoldTree, protocols::seeded_abinitio::SegmentHybridizer, protocols::abinitio::DomainAssembly, protocols::protein_interface_design::movers::BuildAlaPose, protocols::rna::RNA_LoopCloser, protocols::seeded_abinitio::CloseFold, protocols::simple_moves::PeptideStapleMover, protocols::simple_moves::symmetry::DetectSymmetry, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::ligand_docking::StartFrom, protocols::medal::MedalExchangeMover, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::LoopOver, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::simple_moves::SequenceProfileMover, protocols::ligand_docking::Rotates, protocols::moves::NullMover, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::RandomMutation, protocols::rna::RNA_Minimizer, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::LoadUnboundRotMover, protocols::simple_moves::SwitchChainOrderMover, protocols::star::StarAbinitio, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::seeded_abinitio::CAcstGenerator, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::CutChainMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::seeded_abinitio::GrowPeptides, protocols::simple_moves::DumpPdb, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::LoadPDBMover, protocols::protein_interface_design::movers::LoopLengthChange, protocols::seeded_abinitio::SwapSegment, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::SubroutineMover, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::relax::MiniRelax, protocols::ligand_docking::CompoundTranslate, protocols::loops::FoldTreeFromLoops, protocols::qsar::scoring_grid::GridInitMover, protocols::ligand_docking::RandomConformers, protocols::simple_moves::ClearConstraintsMover, and protocols::protein_interface_design::movers::NullDesignMover.

Definition at line 229 of file Mover.cc.

Referenced by protocols::abinitio::ResolutionSwitcher::apply(), protocols::rbsegment_relax::RBSegmentRelax::apply(), protocols::enzdes::GenerateStoredRBConfs::apply(), protocols::enzdes::ApplyRandomStoredRBConf::apply(), protocols::enzdes::DiversifyStoredRBConfs::diversify_all_confs(), protocols::relax::RelaxProtocolBase::fresh_instance(), protocols::simple_moves::O2M_MutateMover::parse_def(), protocols::enzdes::MinimizeStoredRBConfs::rb_minimize_all_confs(), and protocols::simple_moves::symmetry::SymmetrySlider::very_far_away().

MoverSP protocols::moves::Mover::create ( )
virtual

Reimplemented in protocols::simple_moves::O2M_MutateMover.

Definition at line 143 of file Mover.cc.

References fresh_instance().

MoverOP protocols::moves::Mover::fresh_instance ( ) const
virtual

this is like clone(), except it generates a new mover object freshly created with the default ctor. This function should be pure virtual but that would disrupt the code base; MAKE SURE YOU DEFINE IT if you want to have your mover be a protocol handed to the job distributor (august 08 vintage).

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::forge::remodel::ResidueVicinityRCG, protocols::comparative_modeling::LoopRelaxMover, protocols::enzdes::PredesignPerturbMover, protocols::ligand_docking::LigandDockMain, protocols::forge::components::VarLengthBuild, protocols::simple_moves::PackRotamersMover, protocols::forge::remodel::RemodelLoopMover, protocols::forge::remodel::RemodelMover, protocols::simple_moves::GenericMonteCarloMover, protocols::fldsgn::BluePrintBDR, protocols::forge::components::BDR, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::flxbb::FlxbbDesign, protocols::canonical_sampling::MetricRecorder, protocols::simple_moves::MinPackMover, protocols::docking::DockingProtocol, protocols::protein_interface_design::movers::Splice, protocols::simple_moves::RotamerTrialsMinMover, protocols::fldsgn::CircularPermutation, protocols::nonlocal::SingleFragmentMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::simple_moves::MinMover, protocols::loophash::LoopHashLibrary, protocols::forge::constraints::InverseRotamersRCG, protocols::hybridization::HybridizeProtocol, protocols::protein_interface_design::movers::TryRotamers, protocols::hybridization::CartesianSampler, protocols::simple_moves::carbohydrates::RingConformationMover, protocols::simple_moves::RotamerTrialsMover, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::simple_moves::RepackSidechainsMover, protocols::ligand_docking::Rotate, protocols::flxbb::InterlockAroma, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::loophash::LoopHashDiversifier, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::dna::DnaInterfacePacker, protocols::analysis::InterfaceAnalyzerMover, protocols::simple_moves::ExtendedPoseMover, protocols::fldsgn::SheetConstraintsRCG, protocols::forge::constraints::InvrotTreeRCG, protocols::protein_interface_design::movers::LoopRemodel, protocols::rosetta_scripts::ParsedProtocol, protocols::simple_moves::ddG, protocols::simple_moves::symmetry::SymMinMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::forge::remodel::RemodelAccumulator, protocols::match::MatcherMover, protocols::canonical_sampling::ParallelTempering, protocols::protein_interface_design::movers::PlaceStubMover, protocols::simple_moves::MonteCarloTest, protocols::features::ReportToDB, protocols::fldsgn::MatchResiduesMover, protocols::forge::constraints::RemoveCsts, protocols::canonical_sampling::HamiltonianExchange, protocols::forge::remodel::RemodelDesignMover, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::loops::loop_mover::refine::RepackTrial, protocols::protein_interface_design::movers::DisulfideMover, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::backrub::BackrubMover, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::enzdes::EnzRepackMinimize, protocols::forge::constraints::NtoC_RCG, protocols::ligand_docking::HighResDocker, protocols::ligand_docking::Translate, protocols::loophash::Mover_LoopHashRefine, protocols::simple_moves::MonteCarloRecover, protocols::backrub::BackrubSidechainMover, protocols::design_opt::GreedyOptMutationMover, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::floppy_tail::FloppyTailMover, protocols::forge::constraints::ConstraintFileRCG, protocols::simple_moves::ConstrainToIdealMover, protocols::abinitio::AbrelaxMover, protocols::antibody2::SnugDock, protocols::dna::DnaInterfaceMultiStateDesign, protocols::moves::IteratedConvergenceMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::ligand_docking::Transform, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::simple_moves::MutateResidue, protocols::loophash::LoopHashRelaxProtocol, protocols::nonlocal::HelixRotate, protocols::design_opt::ParetoOptMutationMover, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::SeparateDnaFromNonDna, protocols::idealize::IdealizeMover, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::protein_interface_design::movers::LoopFinder, protocols::protein_interface_design::movers::RepackMinimize, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::antibody2::SnugDockProtocol, protocols::nonlocal::SheetTranslate, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::simple_moves::MakePolyXMover, protocols::dna::DnaInterfaceMinMover, protocols::moves::DsspMover, protocols::protein_interface_design::movers::MapHotspot, protocols::rigid::RollMover, protocols::simple_moves::MembraneTopology, protocols::anchored_design::AnchoredDesignMover, protocols::canonical_sampling::SimulatedTempering, protocols::enzdes::AddOrRemoveMatchCsts, protocols::simple_moves::ModifyVariantTypeMover, protocols::ligand_docking::MinimizeBackbone, protocols::simple_moves::ScoreMover, protocols::simple_moves::SetTorsion, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::simple_moves::TaskAwareMinMover, protocols::contact_map::ContactMap, protocols::ligand_docking::FinalMinimizer, protocols::loophash::LoopHashMoverWrapper, protocols::motifs::MotifDnaPacker, protocols::protein_interface_design::movers::BackrubDDMover, protocols::relax::RelaxProtocolBase, protocols::simple_moves::ConstraintSetMover, protocols::enzdes::BackboneSampler, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::ligand_docking::SlideTogether, protocols::loophash::FastGapMover, protocols::moves::CyclicMover, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::protein_interface_design::movers::SpinMover, protocols::seeded_abinitio::PlaceFragments, protocols::medal::MedalMover, protocols::moves::StructureRestrictor, protocols::simple_moves::DesignRepackMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::GrowLigand, protocols::moves::IfMover, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::simple_moves::SuperimposeMover, protocols::ligand_docking::InterfaceScoreCalculator, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::ligand_docking::LigandDesign, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::protein_interface_design::movers::VLB, protocols::rosetta_scripts::SavePoseMover, protocols::simple_moves::PDBReloadMover, protocols::medal::MedalExchangeMover, protocols::protein_interface_design::movers::LoopOver, protocols::seeded_abinitio::SeedFoldTree, protocols::seeded_abinitio::SegmentHybridizer, protocols::abinitio::DomainAssembly, protocols::protein_interface_design::movers::BuildAlaPose, protocols::seeded_abinitio::CloseFold, protocols::star::StarAbinitio, protocols::ligand_docking::StartFrom, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::simple_moves::SequenceProfileMover, protocols::ligand_docking::Rotates, protocols::moves::NullMover, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::RandomMutation, protocols::simple_moves::DumpPdb, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::SwitchChainOrderMover, protocols::seeded_abinitio::CAcstGenerator, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::CutChainMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::seeded_abinitio::GrowPeptides, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::LoadPDBMover, protocols::simple_moves::LoadUnboundRotMover, protocols::protein_interface_design::movers::LoopLengthChange, protocols::seeded_abinitio::SwapSegment, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::SubroutineMover, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::ligand_docking::CompoundTranslate, protocols::loops::FoldTreeFromLoops, protocols::qsar::scoring_grid::GridInitMover, protocols::ligand_docking::RandomConformers, protocols::protein_interface_design::movers::NullDesignMover, and protocols::simple_moves::ClearConstraintsMover.

Definition at line 221 of file Mover.cc.

Referenced by create().

core::pose::PoseOP protocols::moves::Mover::get_additional_output ( )
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::moves::IfMover, protocols::rosetta_scripts::ParsedProtocol, and protocols::loophash::LoopHashMoverWrapper.

Definition at line 200 of file Mover.cc.

jobdist::BasicJobCOP protocols::moves::Mover::get_current_job ( ) const
std::string protocols::moves::Mover::get_current_tag ( ) const
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.

Definition at line 137 of file Mover.hh.

References current_tag_.

Referenced by protocols::comparative_modeling::LoopRelaxThreadingMover::apply(), protocols::loops::loop_mover::IndependentLoopMover::apply(), protocols::abinitio::AbrelaxMover::apply(), protocols::relax::ClassicRelax::apply(), protocols::abinitio::KinematicAbinitio::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::abinitio::ConstraintFragmentSampler::apply(), protocols::relax::FastRelax::apply(), protocols::abinitio::FragmentSampler::apply(), protocols::abinitio::ClassicAbinitio::apply(), 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(), and protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure::select_final_loop().

PoseCOP protocols::moves::Mover::get_input_pose ( ) const
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

Definition at line 206 of file Mover.cc.

References last_status_.

Referenced by protocols::loop_build::LoopBuildMover::apply(), protocols::protein_interface_design::movers::VLB::apply(), protocols::rosetta_scripts::ParsedProtocol::apply(), protocols::protein_interface_design::movers::LoopRemodel::apply(), protocols::abinitio::KinematicAbinitio::apply(), protocols::abinitio::JumpingFoldConstraintsWrapper::apply(), protocols::forge::components::VarLengthBuild::apply(), protocols::protein_interface_design::movers::PlaceStubMover::final_cleanup(), protocols::abinitio::AbrelaxApplication::fold(), and protocols::protein_interface_design::movers::PlaceOnLoop::minimize_toward_stub().

virtual std::string protocols::moves::Mover::get_name ( ) const
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::forge::components::VarLengthBuild, protocols::rigid::RigidBodyDofRandomizeMover, protocols::rigid::UniformSphereTransMover, protocols::rigid::RigidBodyTransMover, protocols::rbsegment_relax::StrandTwistingMover, protocols::forge::remodel::RemodelLoopMover, protocols::rigid::RigidBodyDeterministicSpinMover, protocols::forge::remodel::RemodelMover, protocols::rigid::RigidBodySpinMover, protocols::forge::components::BDR, protocols::rbsegment_relax::GaussianRBSegmentMover, protocols::flxbb::FlxbbDesignPack, protocols::simple_moves::LoggedFragmentMover, protocols::cluster::AssignToClustersMover, protocols::rigid::RigidBodyRandomizeMover, protocols::simple_moves::ShearMover, protocols::moves::PyMolMover, protocols::LoopRefine, protocols::cluster::ClusterPhilStyle_Loop, protocols::anchored_design::AnchoredRefineMover, protocols::rbsegment_relax::SequenceShiftMover, protocols::cluster::ClusterPhilStyle, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::moves::CycleMover, protocols::simple_moves::SmallMover, protocols::fldsgn::BluePrintBDR, protocols::enzdes::RepackLigandSiteWithoutLigandMover, protocols::simple_moves::GreenPacker, protocols::antibody::LoopRlxMover, protocols::rbsegment_relax::HelicalGaussianMover, protocols::abinitio::JumpingFoldConstraintsWrapper, protocols::cluster::ClusterBase, protocols::enzdes::DiversifyStoredRBConfs, protocols::simple_moves::MinMover, protocols::forge::remodel::ResidueVicinityRCG, protocols::moves::RandomMover, protocols::anchored_design::AnchoredPerturbMover, protocols::rigid::RigidBodyPerturbMover, protocols::docking::FaDockingSlideIntoContact, protocols::simple_moves::EnergyCutRotamerTrialsMinMover, protocols::moves::RampingMover, protocols::simple_moves::EnergyCutRotamerTrialsMover, protocols::antibody::CloseOneMover, protocols::enzdes::MinimizeStoredRBConfs, protocols::abinitio::ClassicAbinitio, protocols::moves::SequenceMover, protocols::docking::DockingProtocol, protocols::enzdes::PredesignPerturbMover, protocols::simple_moves::ClassicFragmentMover, protocols::simple_moves::BBG8T3AMover, protocols::abinitio::MembraneAbinitio, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::moves::TrialMover, protocols::canonical_sampling::FixedTemperatureController, protocols::docking::DockingSlideIntoContact, protocols::enzdes::ApplyRandomStoredRBConf, protocols::loops::loop_closure::ccd::CcdMover, protocols::abinitio::FragmentSampler, protocols::flxbb::FlxbbDesign, protocols::hybridization::FoldTreeHybridize, protocols::fldsgn::CircularPermutation, protocols::ligand_docking::LigandDockMain, protocols::simple_moves::GenericMonteCarloMover, protocols::antibody::GraftOneMover, protocols::cluster::EnsembleConstraints_Simple, protocols::symmetric_docking::SymDockProtocol, protocols::simple_moves::symmetry::FaSymDockingSlideTogether, protocols::relax::FastRelax, protocols::enzdes::GenerateStoredRBConfs, protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover, protocols::canonical_sampling::MetricRecorder, protocols::abinitio::ConstraintFragmentSampler, protocols::abinitio::FoldConstraints, protocols::ddg::ddGMover, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::comparative_modeling::ThreadingMover, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::surface_docking::FaSlideAwayFromSurface, protocols::simple_moves::sidechain_moves::SidechainMoverBase, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::cluster::EnsembleConstraints, protocols::docking::DockingHighRes, protocols::docking::TemperedDocking, protocols::moves::MCShowMover, protocols::simple_moves::SmoothSymmetricFragmentMover, protocols::idealize::IdealizeMover, protocols::simple_moves::PackRotamersMover, protocols::protein_interface_design::movers::Splice, protocols::comparative_modeling::LoopRelaxMover, protocols::abinitio::Protocol, protocols::antibody2::GraftCDRLoopsProtocol, protocols::docking::InterfaceSidechainMinMover, protocols::rigid::RigidBodyMover, protocols::abinitio::LoopJumpFoldCst, protocols::antibody::CDRH3Modeler, protocols::ligand_docking::LigandBaseProtocol, protocols::symmetric_docking::SymDockingHiRes, protocols::docking::DockMCMCycle, protocols::simple_moves::symmetry::SymDockingSlideIntoContact, protocols::nonlocal::SingleFragmentMover, protocols::backrub::BackrubMover, protocols::rigid::WholeBodyRotationMover, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover, protocols::symmetric_docking::SymInterfaceSidechainMinMover, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::abinitio::KinematicAbinitio, protocols::canonical_sampling::CanonicalSamplingMover, protocols::comparative_modeling::MultiThreadingMover, protocols::moves::MonteCarloUtil, protocols::docking::DockingLowRes, protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure, protocols::moves::ProfilerMover, protocols::rbsegment_relax::CCDMoveWrapper, protocols::relax::ClassicRelax, protocols::antibody2::RefineOneCDRLoop, protocols::forge::remodel::RemodelDesignMover, protocols::docking::DockingHighResLegacy, protocols::docking::DockMCMProtocol, protocols::flxbb::InterlockAroma, protocols::match::MatcherMover, protocols::loophash::LoopHashLibrary, protocols::simple_moves::RotamerTrialsMover, protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover, protocols::simple_moves::ShakeStructureMover, protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover, protocols::surface_docking::FaSlideIntoSurface, protocols::analysis::InterfaceAnalyzerMover, protocols::antibody::GraftMover, protocols::hybridization::ChunkTrialMover, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::moves::CanonicalSamplingMover, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::abinitio::DoubleLayerKinematicAbinitio, protocols::abinitio::KinematicTaskControl, protocols::antibody2::LHRepulsiveRampLegacy, protocols::forge::constraints::InverseRotamersRCG, protocols::hybridization::HybridizeProtocol, protocols::simple_moves::RotamerTrialsMinMover, protocols::simple_moves::SmoothFragmentMover, protocols::hybridization::CartesianHybridize, protocols::protein_interface_design::movers::PlaceStubMover, protocols::docking::DockMinMover, protocols::forge::remodel::RemodelAccumulator, protocols::loops::loop_closure::ccd::CcdLoopClosureMover, protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover, protocols::antibody2::H3RefineCCD, protocols::grafting::GraftMoverBase, protocols::ligand_docking::Rotate, protocols::loops::loop_closure::ccd::FASelectSlidingWindowLoopClosure, protocols::loops::loop_closure::ccd::WidthFirstSlidingWindowLoopClosure, protocols::rigid::WholeBodyTranslationMover, protocols::simple_moves::carbohydrates::RingConformationMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD, protocols::surface_docking::CentroidRelaxMover, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::hybridization::DomainAssembly, protocols::simple_moves::ScoreMover, protocols::surface_docking::FullatomRelaxMover, protocols::LoopRebuild, protocols::rbsegment_relax::RBSegmentMover, protocols::dna::DnaInterfacePacker, protocols::protein_interface_design::movers::TryRotamers, protocols::simple_moves::MinPackMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_CCD, protocols::rna::RNA_DeNovoProtocol, protocols::simple_moves::BackboneMover, protocols::simple_moves::ddG, protocols::comparative_modeling::ExtraThreadingMover, protocols::docking::ConformerSwitchMover, protocols::hybridization::CartesianSampler, protocols::docking::DockSetupMover, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::ligand_docking::LigandDockProtocol, protocols::loops::loop_mover::refine::LoopMover_Refine_KIC, protocols::protein_interface_design::movers::LoopRemodel, protocols::surface_docking::SurfaceDockingProtocol, protocols::features::ReportToDB, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::simple_filters::EvaluatedTrialMover, protocols::simple_moves::WobbleMover, protocols::docking::DockingInitialPerturbation, protocols::fldsgn::MatchResiduesMover, protocols::loops::loop_mover::LoopMover, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::simple_moves::symmetry::SymDockingInitialPerturbation, protocols::moves::RepeatMover, protocols::simple_moves::MonteCarloTest, protocols::hybridization::InsertChunkMover, protocols::loop_build::LoopMover_SlidingWindow, protocols::loophash::LoopHashDiversifier, protocols::loops::loop_mover::refine::LoopRefineInnerCycle, protocols::loops::loop_mover::refine::ShearMinCCDTrial, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::rbsegment_relax::FragInsertAndAlignMover, protocols::backrub::BackrubSidechainMover, protocols::fldsgn::SheetConstraintsRCG, protocols::forge::constraints::InvrotTreeRCG, protocols::noesy_assign::DistanceScoreMover, protocols::nonlocal::BiasedFragmentMover, protocols::simple_moves::DesignRepackMover, protocols::simple_moves::SymmetricFragmentMover, protocols::simple_moves::symmetry::SymMinMover, protocols::swa::StepWisePoseSetup, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::docking::SidechainMinMover, protocols::moves::JumpOutMover, protocols::rbsegment_relax::RBSegmentRelax, protocols::rigid::MembraneNormalPerturbationMover, protocols::simple_moves::oop::OopDPuckMinusMover, protocols::simple_moves::symmetry::SetupNCSMover, protocols::swa::protein::StepWiseProteinResidueSampler, protocols::antibody2::H3PerturbCCD, protocols::antibody2::LHRepulsiveRamp, protocols::flexpep_docking::FlexPepDockingAbInitio, protocols::ligand_docking::HighResDocker, protocols::ligand_docking::Translate, protocols::rigid::RigidBodyMotionMover, protocols::simple_moves::MonteCarloRecover, protocols::antibody2::LHSnugFitLegacy, protocols::antibody2::RefineOneCDRLoopCentroid, protocols::canonical_sampling::TemperatureController, protocols::coarse_rna::CoarseRNA_DeNovoProtocol, protocols::forge::constraints::RemoveCsts, protocols::simple_moves::DME_FilterMover, protocols::antibody2::ModelCDRH3, protocols::canonical_sampling::TrajectoryRecorder, protocols::contact_map::ContactMap, protocols::ligand_docking::UnconstrainedTorsionsMover, protocols::loops::loop_closure::kinematic_closure::KinematicWrapper, protocols::loops::loop_mover::refine::SmallMinCCDTrial, protocols::moves::PDBDumpMover, protocols::relax::CentroidRelax, protocols::canonical_sampling::MetropolisHastingsMover, protocols::design_opt::GreedyOptMutationMover, protocols::enzdes::EnzRepackMinimize, protocols::hotspot_hashing::movers::PlaceSurfaceProbe, protocols::ligand_docking::Transform, protocols::loops::loop_mover::refine::RepackTrial, protocols::swa::rna::StepWiseRNA_ResidueSampler, protocols::toolbox::match_enzdes_util::AlignPoseToInvrotTreeMover, protocols::canonical_sampling::ParallelTempering, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::flexpep_docking::FlexPepDockingLowRes, protocols::floppy_tail::FloppyTailMover, protocols::forge::constraints::NtoC_RCG, protocols::protein_interface_design::movers::DisulfideMover, protocols::simple_moves::ConstrainToIdealMover, protocols::simple_moves::MakePolyXMover, protocols::simple_moves::RepackSidechainsMover, protocols::surface_docking::SlideIntoSurface, protocols::symmetric_docking::SymDockingLowRes, protocols::coarse_rna::CoarseRNA_LoopCloser, protocols::docking::DockingPrepackProtocol, protocols::forge::constraints::ConstraintFileRCG, protocols::loophash::Mover_LoopHashRefine, protocols::moves::DsspMover, protocols::moves::IfMover, protocols::protein_interface_design::movers::LoopFinder, protocols::rna::MultipleDomainMover, protocols::simple_moves::BBConRotMover, protocols::surface_docking::SurfaceOrientMover, protocols::antibody2::SnugDock, protocols::canonical_sampling::HamiltonianExchange, protocols::docking::DockingEnsemblePrepackProtocol, protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC, protocols::simple_moves::AddCavitiesMover, protocols::simple_moves::SaneMinMover, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::simple_moves::symmetry::SymRotamerTrialsMover, protocols::antibody2::H3CterInsert, protocols::moves::ChangeFoldTreeMover, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::simple_moves::FragmentMover, protocols::simple_moves::rational_mc::RationalMonteCarlo, protocols::simple_moves::TorsionDOFMover, protocols::swa::rna::StepWiseRNA_Minimizer, protocols::symmetric_docking::SymFoldandDockRbTrialMover, protocols::symmetric_docking::SymSidechainMinMover, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::design_opt::ParetoOptMutationMover, protocols::enzdes::EnzdesFlexBBProtocol, protocols::loophash::FastGapMover, protocols::rna::RNA_Relaxer, protocols::simple_moves::MutateResidue, protocols::simple_moves::symmetry::SymShakeStructureMover, protocols::abinitio::AbrelaxMover, protocols::antibody2::CDRsMinPackMin, protocols::moves::FilterMover, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::protein_interface_design::movers::RepackMinimize, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::rna::RNA_FragmentMover, protocols::simple_moves::ReturnSidechainMover, protocols::analysis::LoopAnalyzerMover, protocols::antibody2::AntibodyModelerProtocol, protocols::enzdes::SecondaryMatchProtocol, protocols::ligand_docking::MinimizeBackbone, protocols::loophash::LoopHashRelaxProtocol, protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::simple_moves::oop::OopDPuckPlusMover, protocols::swa::rna::StepWiseRNA_AnalyticalLoopCloseSampler, protocols::antibody::AntibodyModeler, protocols::antibody2::RefineBetaBarrel, protocols::antibody2::SnugDockProtocol, protocols::enzdes::ModifyStoredRBConfs, protocols::flexpack::FlexPacker, protocols::motifs::MotifDnaPacker, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::qsar::RenderGridsToKinemage, protocols::swa::rna::StepWiseRNA_PoseSetup, protocols::enzdes::AddOrRemoveMatchCsts, protocols::ligand_docking::FinalMinimizer, protocols::loops::loop_mover::IndependentLoopMover, protocols::loops::loop_mover::perturb::LoopMover_Perturb_QuickCCD_Moves, protocols::moves::StructureRestrictor, protocols::moves::WhileMover, protocols::nonlocal::HelixRotate, protocols::rigid::RollMover, protocols::simple_moves::chiral::ChiralMover, protocols::swa::protein::StepWiseProteinPacker, protocols::swa::protein::StepWiseProteinPoseSetup, protocols::swa::StepWiseResidueSampler, protocols::swa::StepWiseScreener, protocols::comparative_modeling::PartialThreadingMover, protocols::fibril::SetupForFibrilMover, protocols::loops::loop_closure::kinematic_closure::KinematicMover, protocols::rosetta_scripts::ParsedProtocol, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover, protocols::simple_moves::MembraneTopology, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::swa::monte_carlo::RNA_SWA_MonteCarloMover, protocols::swa::protein::StepWiseProteinScreener, protocols::anchored_design::AnchoredDesignMover, protocols::ligand_docking::SlideTogether, protocols::moves::IteratedConvergenceMover, protocols::nonlocal::SheetTranslate, protocols::rigid::MembraneCenterPerturbationMover, protocols::simple_moves::TaskAwareMinMover, protocols::swa::protein::StepWiseProteinLoopBridger, protocols::hybridization::WeightedFragmentSmoothTrialMover, protocols::protein_interface_design::movers::BackrubDDMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::rna::RNA_HelixAssembler, protocols::simple_moves::RepulsiveOnlyMover, protocols::simple_moves::SetTorsion, protocols::swa::protein::StepWiseProteinPoseMinimizer, protocols::dna::DnaInterfaceMultiStateDesign, protocols::enzdes::EnzdesFixBBProtocol, protocols::rna::RNA_LoopCloser, protocols::simple_moves::ConstraintSetMover, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::swa::monte_carlo::RNA_AddMover, protocols::swa::protein::StepWiseProteinCCD_Closer, protocols::swa::rna::RNA_AnalyticLoopCloser, protocols::abinitio::ResolutionSwitcher, protocols::canonical_sampling::SimulatedTempering, protocols::dna::DesignProteinBackboneAroundDNA, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::GrowLigand, protocols::loops::loop_mover::refine::LoopMover_Refine_Backrub, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::rigid::RotateJumpAxisMover, protocols::swa::monte_carlo::RNA_AddOrDeleteMover, protocols::swa::monte_carlo::RNA_O2StarMover, protocols::swa::rna::RNA_LoopCloseSampler, protocols::canonical_sampling::TemperingBase, protocols::dna::SeparateDnaFromNonDna, protocols::enzdes::BackboneSampler, protocols::ligand_docking::InterfaceScoreCalculator, protocols::ligand_docking::TetherLigand, protocols::medal::MedalExchangeMover, protocols::medal::MedalMover, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::rna::RNA_Minimizer, protocols::simple_moves::MissingDensityToJumpMover, protocols::simple_moves::symmetry::SymmetricRMSMover, protocols::simple_moves::TailsScoreMover, protocols::symmetric_docking::SymFoldandDockSlideTrialMover, protocols::cluster::GatherPosesMover, protocols::electron_density::SetupForDensityScoringMover, protocols::ligand_docking::LigandDesign, protocols::protein_interface_design::movers::LoopOver, protocols::star::StarAbinitio, protocols::abinitio::DomainAssembly, protocols::ub_e2c::ubi_e2c_modeler, protocols::enzdes::EnzdesBaseProtocol, protocols::frag_picker::nonlocal::NonlocalFrags, protocols::ligand_docking::AddHydrogen, protocols::ligand_docking::MinimizeLigand, protocols::loophash::LoopHashMoverWrapper, protocols::moves::CyclicMover, protocols::protein_interface_design::movers::MapHotspot, protocols::seeded_abinitio::SegmentHybridizer, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::SetReturningPackRotamersMover, protocols::swa::monte_carlo::RNA_TorsionMover, protocols::antibody2::GraftOneCDRLoop, protocols::canonical_sampling::TrialCounterObserver, protocols::domain_assembly::AssembleLinkerMover, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::simple_moves::oop::OopPuckMinusMover, protocols::simple_moves::oop::OopRandomSmallMover, protocols::swa::monte_carlo::RNA_DeleteMover, protocols::ligand_docking::RigidSearchMover, protocols::ligand_docking::StartFrom, protocols::protein_interface_design::movers::VLB, protocols::rosetta_scripts::SavePoseMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::comparative_modeling::StealLigandMover, protocols::ligand_docking::Rotates, protocols::qsar::qsarMover, protocols::seeded_abinitio::SeedFoldTree, protocols::simple_moves::hbs::HbsPatcher, protocols::simple_moves::oop::OopPatcher, protocols::simple_moves::oop::OopRandomPuckMover, protocols::simple_moves::ProlineFixMover, protocols::symmetric_docking::SymDockBaseProtocol, protocols::protein_interface_design::movers::BuildAlaPose, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::SpinMover, protocols::seeded_abinitio::CloseFold, protocols::seeded_abinitio::PlaceFragments, protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockMoveRbJumpMover, protocols::simple_moves::O2M_MutateMover, protocols::simple_moves::PeptideStapleMover, protocols::symmetric_docking::SymFoldandDockMoveRbJumpMover, protocols::antibody2::CloseOneCDRLoop, protocols::comparative_modeling::LoopRelaxThreadingMover, protocols::dna::DnaInterfaceMinMover, protocols::domain_assembly::PostDockAssemblyScorer, protocols::moves::CompositionMover, protocols::protein_interface_design::movers::SetAtomTree, protocols::rigid::MovePoseToMembraneCenterMover, protocols::simple_moves::PDBReloadMover, protocols::simple_moves::symmetry::DetectSymmetry, protocols::analysis::PackStatMover, protocols::ligand_docking::RandomConformerMover, protocols::moves::NullMover, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::protein_interface_design::movers::RandomMutation, protocols::simple_moves::oop::OopMover, protocols::hybridization::WeightedFragmentTrialMover, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::seeded_abinitio::CAcstGenerator, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::SuperimposeMover, protocols::simple_moves::SwitchChainOrderMover, protocols::comparative_modeling::StealSideChainsMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::RotamerDump::RotamerDumpMover, protocols::seeded_abinitio::GrowPeptides, protocols::simple_moves::DumpPdb, protocols::simple_moves::FavorSequenceProfile, protocols::simple_moves::LoadUnboundRotMover, protocols::protein_interface_design::movers::LoopLengthChange, protocols::rbsegment_relax::AutoRBMover, protocols::relax::MiniRelax, protocols::seeded_abinitio::SwapSegment, protocols::simple_moves::ForceDisulfidesMover, protocols::simple_moves::LoadPDBMover, protocols::domain_assembly::AddAssemblyConstraints, protocols::ligand_docking::CompoundTranslate, protocols::protein_interface_design::movers::SubroutineMover, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::CutChainMover, protocols::comparative_modeling::RecoverSideChainsMover, protocols::domain_assembly::CombineChainsMover, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::simple_moves::oop::OopPuckPlusMover, protocols::simple_moves::SequenceProfileMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::qsar::scoring_grid::GridInitMover, protocols::ligand_docking::RandomConformers, protocols::protein_interface_design::movers::NullDesignMover, protocols::loops::FoldTreeFromLoops, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::docking::stateless::SaneDockingProtocol, protocols::loop_build::LoopBuildMover, protocols::simple_moves::ClearConstraintsMover, and protocols::RBSegmentRelaxImpl.

Referenced by protocols::forge::remodel::RemodelConstraintGenerator::clear_stored_constraints(), protocols::moves::operator<<(), and protocols::forge::remodel::RemodelConstraintGenerator::parse_my_tag().

PoseCOP protocols::moves::Mover::get_native_pose ( ) const

Definition at line 137 of file Mover.cc.

References native_pose_.

Referenced by protocols::rna::RNA_DeNovoProtocol::add_number_native_base_pairs(), protocols::flexpep_docking::FlexPepDockingProtocol::addLowResStatistics(), protocols::rna::RNA_DeNovoProtocol::align_and_output_to_silent_file(), protocols::swa::StepWisePoseSetup::align_poses(), protocols::docking::stateless::SaneDockingProtocol::apply(), protocols::cluster::GatherPosesMover::apply(), protocols::swa::rna::RNA_LoopCloseSampler::apply(), protocols::simple_moves::symmetry::SymmetricRMSMover::apply(), protocols::swa::protein::StepWiseProteinPoseMinimizer::apply(), protocols::antibody2::GraftCDRLoopsProtocol::apply(), protocols::antibody2::AntibodyModelerProtocol::apply(), protocols::antibody::AntibodyModeler::apply(), protocols::antibody2::ModelCDRH3::apply(), protocols::coarse_rna::CoarseRNA_DeNovoProtocol::apply(), protocols::flexpep_docking::FlexPepDockingProtocol::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::apply(), protocols::rna::RNA_DeNovoProtocol::apply(), protocols::simple_moves::ScoreMover::apply(), protocols::antibody2::RefineOneCDRLoop::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::apply(), protocols::antibody::GraftMover::apply(), protocols::relax::ClassicRelax::apply(), protocols::symmetric_docking::SymDockProtocol::apply(), protocols::relax::FastRelax::apply(), protocols::docking::DockingProtocol::apply(), protocols::rosetta_scripts::ParsedProtocol::apply_mover_filter_pair(), protocols::relax::FastRelax::batch_apply(), protocols::symmetric_docking::SymDockProtocol::calc_rms(), protocols::rna::RNA_DeNovoProtocol::calc_rmsds(), 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::enzdes::EnzdesBaseProtocol::enzdes_pack(), protocols::swa::StepWiseScreener::filter_and_output(), protocols::swa::protein::StepWiseProteinScreener::filter_and_output(), protocols::swa::StepWiseScreener::filter_native_BIG_BINS(), protocols::swa::protein::StepWiseProteinScreener::filter_native_BIG_BINS(), protocols::antibody2::GraftCDRLoopsProtocol::finalize_setup(), protocols::antibody2::AntibodyModelerProtocol::finalize_setup(), protocols::swa::rna::StepWiseRNA_ResidueSampler::floating_base_sampling(), protocols::swa::StepWisePoseSetup::initialize_pose_from_streams(), 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::swa::rna::StepWiseRNA_ResidueSampler::output_pose_data_list(), protocols::swa::rna::StepWiseRNA_AnalyticalLoopCloseSampler::output_pose_data_list(), protocols::swa::rna::StepWiseRNA_Minimizer::output_pose_data_wrapper(), protocols::swa::monte_carlo::RNA_SWA_MonteCarloMover::output_silent_file(), protocols::rna::RNA_DeNovoProtocol::output_silent_struct(), protocols::coarse_rna::CoarseRNA_DeNovoProtocol::output_to_silent_file(), protocols::swa::rna::StepWiseRNA_Minimizer::pass_all_pose_screens(), protocols::swa::StepWiseScreener::prepare_ghost_pose(), protocols::swa::protein::StepWiseProteinScreener::prepare_ghost_pose(), protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure::process_fragments(), protocols::swa::StepWiseResidueSampler::sample_residues(), protocols::swa::protein::StepWiseProteinPacker::sample_residues(), protocols::swa::protein::StepWiseProteinResidueSampler::sample_residues(), protocols::loops::loop_closure::ccd::FASelectSlidingWindowLoopClosure::select_final_loop(), protocols::relax::RelaxProtocolBase::set_up_constraints(), protocols::swa::rna::StepWiseRNA_PoseSetup::setup_native_pose(), protocols::swa::StepWisePoseSetup::setup_working_native_pose(), protocols::swa::rna::StepWiseRNA_AnalyticalLoopCloseSampler::standard_sampling(), protocols::swa::rna::StepWiseRNA_ResidueSampler::standard_sampling(), protocols::swa::rna::StepWiseRNA_ResidueSampler::standard_sampling_WRAPPER(), protocols::flexpep_docking::FlexPepDockingProtocol::storeJobStatistics(), and protocols::swa::rna::StepWiseRNA_AnalyticalLoopCloseSampler::Update_pose_data_list().

std::string protocols::moves::Mover::get_type ( ) const
inline

Definition at line 181 of file Mover.hh.

References type_.

Referenced by protocols::moves::operator<<().

virtual Strings& protocols::moves::Mover::info ( )
inlinevirtual
virtual Strings const& protocols::moves::Mover::info ( ) const
inlinevirtual

const accessor

Definition at line 203 of file Mover.hh.

References info_.

virtual core::Real protocols::moves::Mover::last_proposal_density_ratio ( )
inlinevirtual
static std::string protocols::moves::Mover::name ( )
inlinestatic

Definition at line 100 of file Mover.hh.

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::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::ligand_docking::LigandDockMain::LigandDockMain(), protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::model_loop(), protocols::ligand_docking::LigandDockProtocol::optimize_orientation3(), protocols::protein_interface_design::movers::MapHotspot::output_pose(), protocols::simple_moves::FavorSequenceProfile::parse_def(), protocols::ligand_docking::CompoundTranslate::parse_my_tag(), protocols::ligand_docking::StartFrom::parse_my_tag(), protocols::simple_moves::FavorSequenceProfile::parse_my_tag(), protocols::ligand_docking::InterfaceScoreCalculator::parse_my_tag(), protocols::canonical_sampling::MetricRecorder::parse_my_tag(), protocols::moves::StructureRestrictor::pose_name(), protocols::hybridization::HybridizeProtocol::read_template_structures(), protocols::moves::PyMolMover::send_energy(), protocols::moves::PyMolMover::send_RAW_Energies(), and protocols::dna::DnaInterfacePacker::set_filename_root().

Mover & protocols::moves::Mover::operator= ( Mover const &  other)
void protocols::moves::Mover::parse_def ( utility::lua::LuaObject const &  def,
utility::lua::LuaObject const &  score_fxns,
utility::lua::LuaObject const &  tasks,
MoverCacheSP  cache 
)
virtual
void protocols::moves::Mover::parse_my_tag ( TagPtr const  tag,
DataMap data,
Filters_map const &  filters,
Movers_map const &  movers,
Pose const &  pose 
)
virtual

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::forge::remodel::RemodelLoopMover, protocols::simple_moves::GenericMonteCarloMover, protocols::rigid::RigidBodyPerturbNoCenterMover, protocols::fldsgn::BluePrintBDR, protocols::docking::DockingProtocol, protocols::flxbb::FlxbbDesign, protocols::comparative_modeling::LoopRelaxMover, protocols::moves::RandomMover, protocols::forge::remodel::ResidueVicinityRCG, protocols::moves::TrialMover, protocols::enzdes::PredesignPerturbMover, protocols::moves::RampingMover, protocols::fldsgn::potentials::SetSecStructEnergies, protocols::simple_moves::BackboneMover, protocols::fldsgn::CircularPermutation, protocols::docking::TemperedDocking, protocols::canonical_sampling::MetricRecorder, protocols::fldsgn::potentials::SetAACompositionPotential, protocols::simple_moves::PackRotamersMover, protocols::features::ReportToDB, protocols::idealize::IdealizeMover, protocols::relax::FastRelax, protocols::nonlocal::SingleFragmentMover, protocols::protein_interface_design::movers::Splice, protocols::docking::DockingInitialPerturbation, protocols::simple_moves::symmetry::ExtractAsymmetricPoseMover, protocols::simple_moves::MinMover, protocols::simple_moves::RotamerTrialsMover, protocols::simple_moves::ConsensusDesignMover, protocols::simple_moves::RotamerTrialsMinMover, protocols::flxbb::InterlockAroma, protocols::hybridization::HybridizeProtocol, protocols::docking::DockSetupMover, protocols::protein_interface_design::movers::PlaceSimultaneouslyMover, protocols::simple_moves::sidechain_moves::SidechainMCMover, protocols::dna::DnaInterfacePacker, protocols::protein_interface_design::movers::PlaceStubMover, protocols::canonical_sampling::MetropolisHastingsMover, protocols::canonical_sampling::PDBTrajectoryRecorder, protocols::ligand_docking::Rotate, protocols::moves::MonteCarloUtil, protocols::rotamer_recovery::RotamerRecoveryMover, protocols::loops::loop_mover::refine::LoopMover_Refine_CCD, protocols::simple_moves::MonteCarloTest, protocols::simple_moves::MinPackMover, protocols::protein_interface_design::movers::TryRotamers, protocols::simple_moves::MonteCarloRecover, protocols::simple_moves::symmetry::ExtractAsymmetricUnitMover, protocols::forge::constraints::InverseRotamersRCG, protocols::hybridization::CartesianSampler, protocols::analysis::InterfaceAnalyzerMover, protocols::flexpep_docking::FlexPepDockingProtocol, protocols::simple_moves::ExtendedPoseMover, protocols::simple_moves::sidechain_moves::SidechainMover, protocols::fldsgn::MatchResiduesMover, protocols::protein_interface_design::movers::LoopRemodel, protocols::canonical_sampling::ParallelTempering, protocols::match::MatcherMover, protocols::protein_interface_design::movers::PlacementAuctionMover, protocols::simple_moves::ddG, protocols::simple_moves::symmetry::SymMinMover, protocols::backrub::BackrubMover, protocols::backrub::BackrubSidechainMover, protocols::rosetta_scripts::ParsedProtocol, protocols::canonical_sampling::HamiltonianExchange, protocols::loophash::LoopHashDiversifier, protocols::protein_interface_design::movers::DisulfideMover, protocols::protein_interface_design::movers::LoopMoverFromCommandLine, protocols::simple_moves::sidechain_moves::JumpRotamerSidechainMover, protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover, protocols::simple_moves::sidechain_moves::PerturbRotamerSidechainMover, protocols::canonical_sampling::SidechainMetropolisHastingsMover, protocols::canonical_sampling::SilentTrajectoryRecorder, protocols::simple_moves::sidechain_moves::SidechainMoverBase, protocols::ligand_docking::HighResDocker, protocols::ligand_docking::Translate, protocols::simple_moves::symmetry::SymRotamerTrialsMover, protocols::hotspot_hashing::movers::PlaceSurfaceProbe, protocols::simple_moves::PackRotamersMoverLazy, protocols::canonical_sampling::TrajectoryRecorder, protocols::design_opt::GreedyOptMutationMover, protocols::enzdes::EnzRepackMinimize, protocols::simple_moves::MutateResidue, protocols::ligand_docking::Transform, protocols::simple_moves::RepackSidechainsMover, protocols::simple_moves::symmetry::SymPackRotamersMover, protocols::rigid::RollMover, protocols::simple_moves::MakePolyXMover, protocols::moves::DsspMover, protocols::moves::IfMover, protocols::protein_interface_design::movers::LoopFinder, protocols::design_opt::ParetoOptMutationMover, protocols::enzdes::BackboneSampler, protocols::fldsgn::SheetConstraintsRCG, protocols::forge::constraints::InvrotTreeRCG, protocols::simple_moves::MembraneTopology, protocols::canonical_sampling::SimulatedTempering, protocols::enzdes::AddOrRemoveMatchCsts, protocols::enzdes::PackRotamersMoverPartGreedy, protocols::protein_interface_design::movers::RepackMinimize, protocols::protein_interface_design::movers::SaveAndRetrieveSidechains, protocols::simple_moves::symmetry::SetupNCSMover, protocols::moves::StructureRestrictor, protocols::protein_interface_design::movers::DesignMinimizeHbonds, protocols::simple_moves::SetTorsion, protocols::forge::constraints::RemoveCsts, protocols::ligand_docking::MinimizeBackbone, protocols::pb_potential::SetupPoissonBoltzmannPotential, protocols::simple_moves::ScoreMover, protocols::simple_moves::TaskAwareMinMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover, protocols::qsar::RenderGridsToKinemage, protocols::simple_moves::ModifyVariantTypeMover, protocols::simple_moves::SwitchResidueTypeSetMover, protocols::dna::DnaInterfaceMultiStateDesign, protocols::forge::remodel::RemodelConstraintGenerator, protocols::ligand_docking::FinalMinimizer, protocols::protein_interface_design::movers::BackrubDDMover, protocols::simple_moves::ConstraintSetMover, protocols::comparative_modeling::PartialThreadingMover, protocols::contact_map::ContactMap, protocols::forge::constraints::NtoC_RCG, protocols::moves::IteratedConvergenceMover, protocols::forge::constraints::ConstraintFileRCG, protocols::ligand_docking::InterfaceScoreCalculator, protocols::ligand_docking::SlideTogether, protocols::seeded_abinitio::SeedFoldTree, protocols::electron_density::SetupForDensityScoringMover, protocols::protein_interface_design::movers::SetupHotspotConstraintsMover, protocols::canonical_sampling::TemperingBase, protocols::dna::DesignProteinBackboneAroundDNA, protocols::dna::SeparateDnaFromNonDna, protocols::protein_interface_design::movers::PlacementMinimizationMover, protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover, protocols::simple_moves::sidechain_moves::SetChiMover, protocols::ligand_docking::AddHydrogens, protocols::ligand_docking::GrowLigand, protocols::protein_interface_design::movers::MapHotspot, protocols::simple_moves::DesignRepackMover, protocols::canonical_sampling::TrialCounterObserver, protocols::protein_interface_design::movers::BestHotspotCstMover, protocols::protein_interface_design::movers::InterfaceRecapitulationMover, protocols::simple_moves::FavorSequenceProfile, protocols::dna::DnaInterfaceMinMover, protocols::ligand_docking::LigandDesign, protocols::rosetta_scripts::SavePoseMover, protocols::protein_interface_design::movers::LoopOver, protocols::protein_interface_design::movers::PlaceOnLoop, protocols::abinitio::DomainAssembly, protocols::loophash::LoopHashMoverWrapper, protocols::protein_interface_design::movers::HotspotHasherMover, protocols::protein_interface_design::movers::VLB, protocols::seeded_abinitio::SegmentHybridizer, protocols::simple_moves::SwitchChainOrderMover, protocols::ligand_docking::StartFrom, protocols::seeded_abinitio::CloseFold, protocols::simple_moves::DumpPdb, protocols::simple_moves::symmetry::DetectSymmetry, protocols::simple_moves::symmetry::SetupForSymmetryMover, protocols::ligand_docking::Rotates, protocols::protein_interface_design::movers::BuildAlaPose, protocols::simple_moves::SuperimposeMover, protocols::protein_interface_design::movers::FavorNativeResiduePreCycle, protocols::protein_interface_design::movers::PeptideStapleDesignMover, protocols::protein_interface_design::movers::SetAtomTree, protocols::protein_interface_design::movers::SpinMover, protocols::seeded_abinitio::PlaceFragments, protocols::simple_moves::LoadUnboundRotMover, protocols::protein_interface_design::movers::FavorNonNativeResiduePreCycle, protocols::protein_interface_design::movers::PrepackMover, protocols::protein_interface_design::movers::RandomMutation, protocols::seeded_abinitio::CAcstGenerator, protocols::seeded_abinitio::SeedSetupMover, protocols::simple_moves::O2M_MutateMover, protocols::simple_moves::PDBReloadMover, protocols::seeded_abinitio::GrowPeptides, protocols::simple_moves::LoadPDBMover, protocols::protein_interface_design::movers::AddChainBreak, protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover, protocols::protein_interface_design::movers::SetTemperatureFactor, protocols::seeded_abinitio::SwapSegment, protocols::protein_interface_design::movers::DockAndRetrieveSidechains, protocols::protein_interface_design::movers::LoopLengthChange, protocols::seeded_abinitio::CoordinateCst, protocols::seeded_abinitio::DefineMovableLoops, protocols::simple_moves::AddConstraintsToCurrentConformationMover, protocols::protein_interface_design::movers::SubroutineMover, protocols::simple_moves::ForceDisulfidesMover, protocols::ligand_docking::CompoundTranslate, protocols::simple_moves::CutChainMover, protocols::simple_moves::SequenceProfileMover, protocols::protein_interface_design::movers::TaskAwareCsts, protocols::qsar::qsarMover, protocols::ligand_docking::RandomConformers, protocols::loops::FoldTreeFromLoops, protocols::protein_interface_design::movers::AddSidechainConstraintsToHotspots, protocols::protein_interface_design::movers::ShoveResidueMover, protocols::qsar::scoring_grid::GridInitMover, and protocols::simple_moves::ClearConstraintsMover.

Definition at line 174 of file Mover.cc.

References protocols::moves::TR().

void protocols::moves::Mover::parse_state ( SerializableState const &  state)
virtual

Definition at line 157 of file Mover.cc.

static void protocols::moves::Mover::register_options ( )
inlinestatic
bool protocols::moves::Mover::reinitialize_for_each_job ( ) const
virtual
bool protocols::moves::Mover::reinitialize_for_new_input ( ) const
virtual
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.

Definition at line 209 of file Mover.cc.

References last_status_, and protocols::moves::MS_SUCCESS.

Referenced by protocols::abinitio::Protocol::apply().

void protocols::moves::Mover::save_state ( SerializableState state)
virtual

Definition at line 168 of file Mover.cc.

void protocols::moves::Mover::set_current_job ( protocols::jobdist::BasicJobCOP  job)

Definition at line 186 of file Mover.cc.

References current_job_.

Referenced by protocols::abinitio::AbrelaxApplication::fold().

void protocols::moves::Mover::set_current_tag ( std::string const &  new_tag)
inline
void protocols::moves::Mover::set_input_pose ( PoseCOP  pose)
virtual
void protocols::moves::Mover::set_last_move_status ( MoverStatus  status)
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".

Definition at line 212 of file Mover.cc.

References last_status_.

Referenced by protocols::protein_interface_design::movers::DockAndRetrieveSidechains::apply(), protocols::protein_interface_design::movers::VLB::apply(), protocols::rosetta_scripts::SavePoseMover::apply(), protocols::loophash::LoopHashMoverWrapper::apply(), protocols::protein_interface_design::movers::PlaceOnLoop::apply(), protocols::protein_interface_design::movers::MapHotspot::apply(), protocols::protein_interface_design::movers::LoopOver::apply(), protocols::rosetta_scripts::ParsedProtocol::apply(), protocols::moves::IfMover::apply(), protocols::antibody2::AntibodyModelerProtocol::apply(), protocols::abinitio::AbrelaxMover::apply(), protocols::moves::FilterMover::apply(), protocols::protein_interface_design::movers::PlacementAuctionMover::apply(), protocols::floppy_tail::FloppyTailMover::apply(), protocols::loops::loop_closure::kinematic_closure::KinematicWrapper::apply(), protocols::loophash::LoopHashDiversifier::apply(), protocols::protein_interface_design::movers::LoopRemodel::apply(), protocols::protein_interface_design::movers::TryRotamers::apply(), protocols::fldsgn::MatchResiduesMover::apply(), protocols::protein_interface_design::movers::PlaceStubMover::apply(), protocols::match::MatcherMover::apply(), protocols::abinitio::KinematicAbinitio::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::simple_moves::GenericMonteCarloMover::apply(), protocols::docking::DockingProtocol::apply(), protocols::moves::SequenceMover::apply(), protocols::abinitio::ClassicAbinitio::apply(), protocols::abinitio::JumpingFoldConstraintsWrapper::apply(), protocols::fldsgn::BluePrintBDR::apply(), protocols::forge::components::BDR::apply(), protocols::forge::remodel::RemodelMover::apply(), protocols::forge::remodel::RemodelLoopMover::apply(), protocols::forge::components::VarLengthBuild::apply(), protocols::rosetta_scripts::ParsedProtocol::apply_filter(), protocols::anchored_design::AnchoredDesignMover::filter(), protocols::rosetta_scripts::ParsedProtocol::finish_protocol(), protocols::rosetta_scripts::ParsedProtocol::get_additional_output(), and protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC::model_loop().

void protocols::moves::Mover::set_native_pose ( PoseCOP  pose)
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, and protocols::moves::MoverContainer.

Definition at line 140 of file Mover.cc.

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::protein_interface_design::movers::LoopMoverFromCommandLine::apply(), protocols::flexpep_docking::FlexPepDockingProtocol::apply(), protocols::protein_interface_design::movers::LoopRemodel::apply(), protocols::loops::loop_mover::refine::LoopMover_Refine_CCD::apply(), protocols::antibody2::RefineOneCDRLoop::apply(), protocols::comparative_modeling::LoopRelaxMover::apply(), protocols::relax::FastRelax::apply(), protocols::docking::DockingProtocol::apply(), protocols::LoopRefine::apply(), protocols::dna::DesignProteinBackboneAroundDNA::ccd(), protocols::enzdes::EnzdesBaseProtocol::EnzdesBaseProtocol(), protocols::antibody2::GraftCDRLoopsProtocol::finalize_setup(), protocols::antibody2::AntibodyModelerProtocol::finalize_setup(), protocols::antibody2::GraftCDRLoopsProtocol::init_from_options(), protocols::antibody2::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::swa::rna::StepWiseRNA_AnalyticalLoopCloseSampler::StepWiseRNA_AnalyticalLoopCloseSampler(), protocols::swa::rna::StepWiseRNA_Minimizer::StepWiseRNA_Minimizer(), protocols::swa::rna::StepWiseRNA_ResidueSampler::StepWiseRNA_ResidueSampler(), and protocols::jobdist::universal_main().

virtual void protocols::moves::Mover::test_move ( Pose pose)
inlinevirtual

: 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.

Definition at line 155 of file Mover.hh.

References apply().

std::string const& protocols::moves::Mover::type ( ) const
inline

Definition at line 132 of file Mover.hh.

References type_.

Referenced by 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::AntibodyModeler::AntibodyModeler(), protocols::enzdes::BackboneSampler::apply(), protocols::protein_interface_design::movers::BackrubDDMover::apply(), protocols::moves::JumpOutMover::apply(), protocols::simple_moves::BackboneMover::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::BBGaussianMover::BBGaussianMover(), protocols::surface_docking::CentroidRelaxMover::CentroidRelaxMover(), protocols::simple_moves::chiral::ChiralMover::ChiralMover(), protocols::hybridization::ChunkTrialMover::ChunkTrialMover(), protocols::abinitio::ClassicAbinitio::ClassicAbinitio(), protocols::docking::ConformerSwitchMover::ConformerSwitchMover(), protocols::abinitio::ConstraintFragmentSampler::ConstraintFragmentSampler(), protocols::protein_interface_design::movers::TaskAwareCsts::cst_type(), protocols::docking::DockingEnsemblePrepackProtocol::DockingEnsemblePrepackProtocol(), protocols::docking::DockingHighResLegacy::DockingHighResLegacy(), protocols::docking::DockingInitialPerturbation::DockingInitialPerturbation(), protocols::docking::DockingLowResEnsemble::DockingLowResEnsemble(), protocols::docking::DockingPrepackProtocol::DockingPrepackProtocol(), protocols::docking::DockingSlideIntoContact::DockingSlideIntoContact(), protocols::docking::DockMCMCycle::DockMCMCycle(), protocols::simple_moves::EnergyCutRotamerTrialsMinMover::EnergyCutRotamerTrialsMinMover(), protocols::simple_moves::EnergyCutRotamerTrialsMover::EnergyCutRotamerTrialsMover(), protocols::enzdes::EnzdesBaseProtocol::EnzdesBaseProtocol(), protocols::docking::FaDockingSlideIntoContact::FaDockingSlideIntoContact(), protocols::surface_docking::FaSlideAwayFromSurface::FaSlideAwayFromSurface(), protocols::surface_docking::FaSlideIntoSurface::FaSlideIntoSurface(), 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::surface_docking::FullatomRelaxMover::FullatomRelaxMover(), protocols::simple_moves::AddCavitiesMover::get_closest_heavy_atom(), protocols::antibody2::SnugDockProtocol::get_name(), protocols::loops::loop_mover::refine::LoopRefineInnerCycleContainer::get_name(), protocols::antibody2::SnugDock::get_name(), protocols::loops::loop_mover::refine::RepackTrial::get_name(), protocols::loops::loop_mover::refine::SmallMinCCDTrial::get_name(), protocols::loops::loop_mover::refine::LoopRefineInnerCycle::get_name(), protocols::loops::loop_mover::refine::ShearMinCCDTrial::get_name(), protocols::simple_moves::carbohydrates::RingConformationMover::get_name(), protocols::docking::DockingLowRes::get_name(), protocols::simple_moves::hbs::HbsPatcher::HbsPatcher(), protocols::simple_moves::HelicalPeptideLengthMover::HelicalPeptideLengthMover(), protocols::loops::loop_mover::refine::LoopMover_Refine_KIC::init(), protocols::antibody2::SnugDockProtocol::init(), protocols::antibody2::SnugDock::init(), protocols::docking::DockMCMProtocol::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::simple_moves::carbohydrates::RingConformationMover::init(), protocols::loops::loop_mover::refine::LoopRefineInnerCycle::init(), protocols::docking::DockingLowRes::init(), protocols::docking::TemperedDocking::init(), protocols::docking::DockingHighRes::init(), protocols::docking::DockingProtocol::init(), protocols::hybridization::InsertChunkMover::InsertChunkMover(), protocols::analysis::InterfaceAnalyzerMover::InterfaceAnalyzerMover(), protocols::docking::InterfaceSidechainMinMover::InterfaceSidechainMinMover(), 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::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::rna::RNA_FragmentMover::random_fragment_insertion(), protocols::ligand_docking::MinimizeBackbone::restrain_protein_Calphas(), 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::RigidBodyTransMover::RigidBodyTransMover(), protocols::rigid::RollMover::RollMover(), protocols::simple_moves::RotamerTrialsMinMover::RotamerTrialsMinMover(), protocols::simple_moves::RotamerTrialsMover::RotamerTrialsMover(), protocols::rigid::RotateJumpAxisMover::RotateJumpAxisMover(), protocols::simple_moves::GenericMonteCarloMover::set_sampletype(), protocols::simple_moves::ShearMover::ShearMover(), protocols::docking::SidechainMinMover::SidechainMinMover(), protocols::surface_docking::SlideIntoSurface::SlideIntoSurface(), protocols::simple_moves::SmallMover::SmallMover(), protocols::surface_docking::SurfaceDockingProtocol::SurfaceDockingProtocol(), 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::rigid::UniformSphereTransMover::UniformSphereTransMover(), protocols::simple_moves::sidechain_moves::SidechainMover::update_type(), protocols::hybridization::WeightedFragmentSmoothTrialMover::WeightedFragmentSmoothTrialMover(), and protocols::hybridization::WeightedFragmentTrialMover::WeightedFragmentTrialMover().

void protocols::moves::Mover::type ( const std::string &  type_in)
inline

Definition at line 162 of file Mover.hh.

References type_.

Member Data Documentation

jobdist::BasicJobCOP protocols::moves::Mover::current_job_
private

this field can be NULL or it refers to the current JOB this mover is working on.

Definition at line 245 of file Mover.hh.

Referenced by get_current_job(), operator=(), and set_current_job().

std::string protocols::moves::Mover::current_tag_
private

Definition at line 234 of file Mover.hh.

Referenced by get_current_tag(), operator=(), and set_current_tag().

Strings protocols::moves::Mover::info_
private

miscellaneous info: optional notes about mover results. Fed to Job by JobDistributor (jd2), allowing JobOutputters to optionally report this information in some way.

Definition at line 242 of file Mover.hh.

Referenced by clear_info(), and info().

PoseCOP protocols::moves::Mover::input_pose_
private

Definition at line 236 of file Mover.hh.

Referenced by get_input_pose(), operator=(), and set_input_pose().

MoverStatus protocols::moves::Mover::last_status_
private

used to track if movers fail their filters - jobdist::BasicJob Distributor queries for this value

Definition at line 240 of file Mover.hh.

Referenced by get_last_move_status(), operator=(), reset_status(), and set_last_move_status().

PoseCOP protocols::moves::Mover::native_pose_
private

Definition at line 237 of file Mover.hh.

Referenced by get_native_pose(), operator=(), and set_native_pose().

std::string protocols::moves::Mover::type_
private

Definition at line 233 of file Mover.hh.

Referenced by get_type(), operator=(), and type().


The documentation for this class was generated from the following files: