pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask Class Reference

Inheritance diagram for pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask:

Public Member Functions
def	parser (self)
def	__init__ (self, protocol_xml)
def	setup (self)
def	parsed_protocol (self)
def	execute (self, pack_or_pose)
Public Member Functions inherited from pyrosetta.distributed.tasks.taskbase.TaskBase
def	__repr__ (self)
def	__name__ (self)
def	__getstate__ (self)
def	__setstate__ (self, state)
def	maybe_setup (self)
def	execute (self)
def	__call__ (self, *args, **kwargs)
Public Member Functions inherited from pyrosetta.distributed.utility.log.LoggerMixin
def	logger (cls)

Public Attributes
	default_options
	tag
	protocol_lock
Public Attributes inherited from pyrosetta.distributed.tasks.taskbase.TaskBase
	is_setup

Static Public Attributes
	protocol_xml = traitlets.CUnicode()

Constructor & Destructor Documentation

__init__()

def pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.__init__	(		self,
			protocol_xml
	)

Referenced by pyrosetta.distributed.tasks.taskbase.TaskBase.__setstate__().

Member Function Documentation

execute()

def pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.execute	(		self,
			pack_or_pose
	)

References CartPerturber.apply(), numeric::BodyPosition< T >.apply(), CountContact.apply(), AssignClusterToolMover.apply(), EnvToolMover.apply(), MinToolMover.apply(), ScoreMover.apply(), OutputMover.apply(), ConstraintToolMover.apply(), RmsfMover.apply(), FitMover.apply(), RDCToolMover.apply(), Protocol_MolecularDynamics.apply(), ZincMatchFilter.apply(), zinc1_homodimer_setup.apply(), CalcIrms.apply(), RMSByResStatistics.apply(), BuriedUnsatPolarsFinder.apply(), HbondZinc.apply(), HbondZincBackbone.apply(), xtal_water_bunsat.apply(), zinc_helix_cap.apply(), ZincMinimize.apply(), CollectCoordinates.apply(), GunnTest.apply(), PrintFeatures.apply(), protocols::abinitio::Stage1Sampler.apply(), RotateSAXS.apply(), DougsDockDesignMinimizeMagicMover.apply(), PeptoidDihedralGrabber.apply(), PeptiodMovieMover.apply(), PeptoidRotamerRecoverer.apply(), CartRefineWrapperMover.apply(), CenRelaxMover.apply(), dsRNA_grow.apply(), MirrorSymmTest.apply(), AbInitio_MPI.apply(), HemeBindingMover.apply(), HemeReplace.apply(), GraftDesignCDRs.apply(), protocols::antibody::design::AntibodyDesignMoverGenerator.apply(), RelaxCDRsMover.apply(), TestMMOP.apply(), InterfaceFeaturesTests.apply(), myspace::GraftTester.apply(), SuperDeviationMover.apply(), ComputeProfileMover.apply(), PrintSequenceMover.apply(), ConstraintMinimizer.apply(), InteractionDistMinimizer.apply(), ConstraintStatsMover.apply(), SpartaSuperDeviationMover.apply(), InjectorMover.apply(), StatefulMover.apply(), InverseRotlibDumpMover.apply(), khSandbox.apply(), khSandbox2.apply(), KHSandbox.apply(), abbinding.apply(), mtransferase.apply(), PhDocking.apply(), PhProtocol.apply(), DesignGlycansProtocol.apply(), GlycomutagenesisProtocol.apply(), LoopHash_Analyze.apply(), TestJD2Mover.apply(), RDCScoreMover.apply(), LocalRmsd.apply(), PairDistance.apply(), PickBAB.apply(), Sasa.apply(), DeleteSegments.apply(), SetupHotspotMover.apply(), ElecDensMinPackMinMover.apply(), FloppyTailMover.apply(), ForgetMover.apply(), HECTMover.apply(), sasa_qdMover.apply(), UBQ_E2Mover.apply(), PepMinMover.apply(), IAMover.apply(), SymFixbbMover.apply(), XMLprinterMover.apply(), FoldTreeOutputter.apply(), HelicalPdbGeneratorMover.apply(), InterfaceStrandFinderMover.apply(), RDF_Mover.apply(), ChiMover.apply(), CycBBMover.apply(), MoveThenFixH.apply(), MoveThenFixHMin.apply(), LigChiMover.apply(), DuboisChiMover.apply(), BBMover.apply(), HolesTrainingDataMover.apply(), SymRBMover.apply(), SimpleBBMover.apply(), MySlideMover.apply(), MyTransMover.apply(), MyRotMover.apply(), FloatScRotMover.apply(), ScMinMover.apply(), apps::pilot::AlignChunkMover.apply(), apps::pilot::MultiTemplateAlignChunkMover.apply(), apps::pilot::CustomStarTreeMover.apply(), apps::pilot::CustomFragmentMover.apply(), apps::pilot::HelixMover.apply(), ChallengeMover.apply(), PBPotentialMover.apply(), apps::pilot::SampleSecondaryStructureAlignmentMover.apply(), SilentProlineFixMover.apply(), InterfaceDDGMover.apply(), A3BHbsCreatorMover.apply(), A3BHbsDockDesignMinimizeMover.apply(), HbsCreatorMover.apply(), A3BPeptideBuilder.apply(), CovalentPeptidomimeticDockDesign.apply(), CovalentPeptidomimeticCreator.apply(), B3AADihedralGrabber.apply(), MikeLinkerMover.apply(), TorsionVectorMover.apply(), TriazoleCreator.apply(), TrizaolamerDockDesignMinimizeMover.apply(), Packing_energies.apply(), SSM_energies.apply(), MyMover.apply(), JDmover.apply(), MyScoreMover.apply(), ComputeSAXSSpectrum.apply(), RescorePDDF.apply(), PrintPDDF.apply(), RescoreSAXS.apply(), FaSolReporter.apply(), MinTestMover.apply(), PerturbStruct.apply(), CrystHbondsReporter.apply(), LigandDockingHbondsReporter.apply(), SetupMover.apply(), JDtestmover.apply(), LDConverterMover.apply(), HotspotPlacementMover.apply(), LoopHashRelax_Sampler.apply(), protocols::moves::FragCaptureMover.apply(), Foldptn.apply(), MakeCanonicalHelix.apply(), SampleTiltProtocol.apply(), ColorByLipidType.apply(), FindOptimalHydrophobicThk.apply(), LigandRepackMinimizeProtocol.apply(), hackLAMMover.apply(), CalcsTestMover.apply(), MinPackMinMover.apply(), MinCenrotMover.apply(), CenRotRelaxMover.apply(), RosettaHolesMover.apply(), IdentifyCDRClusters.apply(), DockGlycansProtocol.apply(), GlycanClashCheckMover.apply(), APDBCMover.apply(), AnchorFinderMover.apply(), ExtractATD.apply(), HbsDesignMover.apply(), OopDesignMover.apply(), PeptoidDesignMover.apply(), MakeSegmentFileMPI.apply(), RNA_ScoreMover.apply(), ExposedStrandMover.apply(), HDdesignMover.apply(), HDmakerMover.apply(), CaToAllAtom.apply(), UBQ_GTPase_disulfide_Mover.apply(), BacksideHbondFinderMover.apply(), MetalSiteFinderMover.apply(), SeqBBTorSRFD.apply(), HemaggTrimer.apply(), MotifDock.apply(), CalcCdrRms.apply(), PackingAngle.apply(), FastThreadingMover.apply(), CloseContactWithResidue.apply(), protocols::antibody::task_operations::AddFrameworkProfilesOperation.apply(), Designer.apply(), SimulateCryoMover.apply(), TNM.apply(), DummyMover.apply(), OutputCenrotIntCoord.apply(), RepackCenrotMover.apply(), SmoothFragRepackMover.apply(), RescoreCenrot.apply(), RepackMinCenrotMover.apply(), ZincSiteEvaluator.apply(), CustomMover.apply(), DetectSymmetry.apply(), FragmentBasedDesign.apply(), SwapElementsMover1.apply(), SwapElementsMover2.apply(), MPFindInterfaceTestMover.apply(), MPframeworkTestMover.apply(), MPframeworkTest1Mover.apply(), ClosureMover.apply(), BreadthMover.apply(), MyApp.apply(), NativeEnsemble.apply(), Benchmark.apply(), RamaTestMover.apply(), ScTrials.apply(), HBondReporter.apply(), MotifScanMover.apply(), MembraneViewMover.apply(), MembraneMinMover.apply(), MembraneSfxnMover.apply(), MembraneDockingxMover.apply(), MembraneRelaxMover.apply(), MembraneSampleMover.apply(), MembraneTransformMover.apply(), BBG_Cyclic_Mover.apply(), MyProtocol.apply(), FloatScRandomChi.apply(), FloatScMonteCarlo.apply(), BUNS_Output.apply(), zinc1_homodimer_design.apply(), CrystDesign.apply(), CrystRelax.apply(), CrystCluster.apply(), CrystFFTDock.apply(), MPInterfaceStatistics.apply(), TestQuickRelaxMover.apply(), MPFoldingMover.apply(), LoadMembraneMover.apply(), ViewMembraneProteinMover.apply(), ClearPoseHeader.apply(), CenRotSidechainMover.apply(), CenRotCanonicalMover.apply(), CenRotRBRelaxMover.apply(), CenRotDockingMover.apply(), zinc2_homodimer_design.apply(), zinc2_homodimer_setup.apply(), MPDomainAssembly.apply(), Minimize.apply(), ExemplarMover.apply(), NCMinimize.apply(), Hit.apply(), myspace::Evaluator.apply(), StepwiseTorsionMover.apply(), ConcertedTorsionMover.apply(), protocols::moves::SimpleCstMover.apply(), BondedRNA_Mover.apply(), ZF_PatchupMover.apply(), MPScoreFunctionFingerprintMover.apply(), complex_interface_optimize.apply(), generate_hbond_geometry.apply(), ScoreFunctionFingerprintMover.apply(), compute_Irmsd.apply(), run_score_patchdock_hotspot.apply(), run_score_hotspot.apply(), protocols::abinitio::PcaEvaluator.apply(), protocols::abinitio::ShowViolation.apply(), protocols::abinitio::ComputeTotalDistCst.apply(), numeric::Quaternion< T >.apply(), pyrosetta.bindings.scores.base.PoseCacheAccessorBase.apply(), test.T850_SubClassing.My_New_Mover.apply(), pyrosetta.distributed.tasks.rosetta_scripts.MultioutputRosettaScriptsTask.apply(), pyrosetta.distributed.tasks.rosetta_scripts.SingleoutputRosettaScriptsTask.apply(), test.Workshop9_my_shapes.PhiNByXDegreesMover.apply(), pyrosetta.distributed.viewer.modules.setBackgroundColor.apply(), pyrosetta.distributed.viewer.modules.setDisulfides.apply(), pyrosetta.distributed.viewer.modules.setHydrogenBonds.apply(), pyrosetta.distributed.viewer.modules.setHydrogens.apply(), pyrosetta.distributed.viewer.modules.setStyle.apply(), pyrosetta.distributed.viewer.modules.setSurface.apply(), pyrosetta.distributed.viewer.modules.setZoom.apply(), and pyrosetta.distributed.viewer.modules.setZoomTo.apply().

parsed_protocol()

def pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.parsed_protocol

(

self

)

References protocols::surface_docking::AntibodyInfoRMLoader.default_options(), pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.default_options, numeric::CalculatorParser.parser(), pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.parser(), SpacegroupHit.tag, myspace::DatumStruct.tag, MatchLig.tag, PoseWrap.tag(), numeric::RocPoint.tag(), pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.tag, and utility::tag::tag_grammar::definition< Scanner >.tag.

Referenced by pyrosetta.distributed.tasks.rosetta_scripts.MultioutputRosettaScriptsTask.apply(), and pyrosetta.distributed.tasks.rosetta_scripts.SingleoutputRosettaScriptsTask.apply().

parser()

def pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.parser

(

self

)

Referenced by pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.parsed_protocol().

setup()

def pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.setup

(

self

)

Reimplemented from pyrosetta.distributed.tasks.taskbase.TaskBase.

Referenced by pyrosetta.distributed.tasks.taskbase.TaskBase.maybe_setup().

Member Data Documentation

default_options

pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.default_options

Referenced by pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.parsed_protocol().

protocol_lock

pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.protocol_lock

Referenced by pyrosetta.distributed.tasks.rosetta_scripts.MultioutputRosettaScriptsTask.apply(), pyrosetta.distributed.tasks.rosetta_scripts.SingleoutputRosettaScriptsTask.apply(), and pyrosetta.distributed.tasks.score.ScorePoseTask.execute().

protocol_xml

pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.protocol_xml = traitlets.CUnicode()

static

tag

pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.tag

Referenced by pyrosetta.distributed.tasks.rosetta_scripts.BaseRosettaScriptsTask.parsed_protocol().

---

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

• src/python/PyRosetta/src/pyrosetta/distributed/tasks/rosetta_scripts.py