core.init: Rosetta version unknown:exported from http://www.rosettacommons.org core.init: command: /home/lulab/Julian/rosetta_src_2016.20.58704_bundle/main/source/bin/rosetta_scripts.default.linuxgccrelease -s Mb_b5_0b.pdb -extra_res_fa HEM.params -parser:protocol fastdesign.xml core.init: 'RNG device' seed mode, using '/dev/urandom', seed=-1209174677 seed_offset=0 real_seed=-1209174677 core.init.random: RandomGenerator:init: Normal mode, seed=-1209174677 RG_type=mt19937 core.init: Resolved executable path: /home/lulab/Julian/rosetta_src_2016.20.58704_bundle/main/source/build/src/release/linux/3.2/64/x86/gcc/4.7/default/rosetta_scripts.default.linuxgccrelease core.init: Looking for database based on location of executable: /home/lulab/Julian/rosetta_src_2016.20.58704_bundle/main/database/ protocols.jd2.PDBJobInputter: Instantiate PDBJobInputter protocols.jd2.PDBJobInputter: PDBJobInputter::fill_jobs protocols.jd2.PDBJobInputter: pushed Mb_b5_0b.pdb nstruct index 1 protocols.evaluation.ChiWellRmsdEvaluatorCreator: Evaluation Creator active ... protocols.jd2.JobDistributor: Parser is present. Input mover will be overwritten with whatever the parser creates. protocols.jd2.PDBJobInputter: PDBJobInputter::pose_from_job protocols.jd2.PDBJobInputter: filling pose from PDB Mb_b5_0b.pdb core.chemical.ResidueTypeSet: Finished initializing fa_standard residue type set. Created 388 residue types core.chemical.ResidueTypeSet: Total time to initialize 0.88 seconds. core.io.pose_from_sfr.chirality_resolution: Flipping atom xyz for H21 and H22 for residue HEM protocols.rosetta_scripts.RosettaScriptsParser: dock_design_filename=fastdesign.xml protocols.rosetta_scripts.RosettaScriptsParser: Parsed script: core.scoring.ScoreFunctionFactory: SCOREFUNCTION: talaris2014 core.scoring.etable: Starting energy table calculation core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6) core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6) core.scoring.etable: Finished calculating energy tables. basic.io.database: Database file opened: scoring/score_functions/hbonds/sp2_elec_params/HBPoly1D.csv basic.io.database: Database file opened: scoring/score_functions/hbonds/sp2_elec_params/HBFadeIntervals.csv basic.io.database: Database file opened: scoring/score_functions/hbonds/sp2_elec_params/HBEval.csv basic.io.database: Database file opened: scoring/score_functions/rama/Rama_smooth_dyn.dat_ss_6.4 basic.io.database: Database file opened: scoring/score_functions/P_AA_pp/P_AA basic.io.database: Database file opened: scoring/score_functions/P_AA_pp/P_AA_n basic.io.database: Database file opened: scoring/score_functions/P_AA_pp/P_AA_pp basic.io.database: Database file opened: scoring/score_functions/PairEPotential/pdb_pair_stats_fine core.scoring.etable: Using alternate parameters: LJ_RADIUS_SOFT in Etable construction. core.scoring.etable: Starting energy table calculation core.scoring.etable: smooth_etable: changing atr/rep split to bottom of energy well core.scoring.etable: smooth_etable: spline smoothing lj etables (maxdis = 6) core.scoring.etable: smooth_etable: spline smoothing solvation etables (max_dis = 6) core.scoring.etable: Finished calculating energy tables. basic.io.database: Database file opened: scoring/score_functions/InterchainPotential/interchain_env_log.txt basic.io.database: Database file opened: scoring/score_functions/InterchainPotential/interchain_pair_log.txt basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/env_log.txt basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/cbeta_den.txt basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/pair_log.txt basic.io.database: Database file opened: scoring/score_functions/EnvPairPotential/cenpack_log.txt protocols.jd2.parser.ScoreFunctionLoader: defined score function "tala" with weights "talaris2014" defined score function "tala_soft" with weights "soft_rep" protocols.jd2.parser.TaskOperationLoader: Defined TaskOperation named "no_mutate_important" of type RestrictResiduesToRepacking protocols.jd2.parser.TaskOperationLoader: Defined TaskOperation named "design_interface" of type RestrictToInterface protocols.simple_filters.ShapeComplementarityFilter: Structures with shape complementarity < 0.4, interface area < 0 A^2 will be filtered. protocols.rosetta_scripts.RosettaScriptsParser: Defined filter named "sc_filt" of type ShapeComplementarity protocols.filters.PackStatFilter: Structures with packstat score 0.5 will be filtred. protocols.rosetta_scripts.RosettaScriptsParser: Defined filter named "pack_filt" of type PackStat protocols.rosetta_scripts.RosettaScriptsParser: Defined filter named "sasa_filt" of type Sasa protocols.rosetta_scripts.RosettaScriptsParser: Defined filter named "expF_filt" of type ExposedHydrophobics protocols.simple_filters.BuriedUnsatHbondFilter: Buried Unsatisfied Hbond filter over jump number 1 with cutoff 50 protocols.rosetta_scripts.RosettaScriptsParser: Defined filter named "BUH_filt" of type BuriedUnsatHbonds core.mm.MMBondAngleLibrary: MM bond angle sets added fully assigned: 588; wildcard: 0 and 1 virtual parameter. protocols.protein_interface_design.BackrubDDMover: backrub mover over residues: protocols.rosetta_scripts.RosettaScriptsParser: Defined mover named "move_b5" of type BackrubDD protocols.RosettaScripts.util: Object pack reading the following task_operations: Adding the following task operations no_mutate_important design_interface protocols.rosetta_scripts.RosettaScriptsParser: Defined mover named "pack" of type PackRotamersMover protocols.moves.MoverFactory: Available movers: AbscriptLoopCloserCM, AbscriptMover, AddChain, AddChainBreak, AddCompositionConstraintMover, AddConstraints, AddConstraintsToCurrentConformationMover, AddHydrogens, AddJobPairData, AddMPLigandMover, AddMembraneMover, AddOrRemoveMatchCsts, AddSidechainConstraintsToHotspots, AddStartnodeFragments, AlignChain, AnchoredGraftMover, AntibodyCDRGrafter, AntibodyDesignMover, AntibodyDesignProtocol, AppendAssemblyMover, AssemblyConstraintsMover, AtomCoordinateCstMover, AtomTree, Auction, BBGaussian, BackboneGridSampler, BackboneSampler, BackboneTorsionPerturbation, BackboneTorsionSampler, Backrub, BackrubDD, BackrubSidechain, BestHotspotCst, BfactorFitting, BluePrintBDR, BoltzmannRotamerMover, BridgeChains, BundleGridSampler, CAcstGenerator, CCDEndsGraftMover, CCDLoopClosureMover, CDRDihedralConstraintMover, CartesianMD, CartesianSampler, ChangeAndResetFoldTreeMover, CircularPermutation, ClearCompositionConstraintsMover, ClearConstraintsMover, CloseFold, CoMTrackerCM, CompoundTranslate, ComputeLigandRDF, ConformerSwitchMover, ConnectTerminiWithDisulfide, ConsensusDesignMover, ConstraintPreparer, ConstraintSetMover, ContactMap, ContingentAccept, CoordinateCst, CoupledMover, CreateAngleConstraint, CreateDistanceConstraint, CreateTorsionConstraint, DeclareBond, DefineMovableLoops, DeleteChain, DeleteChainsMover, DeleteRegionMover, DesignMinimizeHbonds, DesignProteinBackboneAroundDNA, DetectSymmetry, DisulfideInsertion, DisulfideMover, Disulfidize, DnaInterfaceMinMover, DnaInterfaceMultiStateDesign, DnaInterfacePacker, DockLatticeMover, DockSetupMover, DockWithHotspotMover, Docking, DockingInitialPerturbation, DockingProtocol, DomainAssembly, Dssp, DumpPdb, EnumerateAssemblyMover, Environment, EnzRepackMinimize, ExtendChain, ExtendedPoseMover, ExtractAsymmetricPose, ExtractAsymmetricUnit, ExtractSubposeMover, FastRelax, FavorNativeResidue, FavorNonNativeResidue, FavorSequenceProfile, FavorSymmetricSequence, FinalMinimizer, FindConsensusSequence, FitBfactors, FitSimpleHelix, FixAllLoopsMover, FlexPepDock, FlipMover, FlxbbDesign, FoldTreeFromLoops, ForceDisulfides, FragmentCM, FragmentJumpCM, GeneralizedKIC, GenericMonteCarlo, GivenPathAssemblyMover, GlycanRelaxMover, GreedyAssemblyMover, GreedyOptMutationMover, GridInitMover, GrowLigand, GrowPeptides, HamiltonianExchange, HighResDocker, HotspotDisjointedFoldTree, HotspotHasher, Hybridize, Idealize, IdealizeHelices, If, InitializeByBins, InsertPoseIntoPoseMover, InsertResMover, InterfaceAnalyzerMover, InterfaceRecapitulation, InterfaceScoreCalculator, InterlockAroma, InverseRotamersCstGenerator, InvrotTreeCstGenerator, IteratedConvergence, JumpRotamerSidechain, KeepRegionMover, KicMover, LegacyKicSampler, LigandDesign, LinkageConformerMover, LoadDensityMap, LoadPDB, LocalRelax, LoopBuilder, LoopCM, LoopFinder, LoopHash, LoopHashDiversifier, LoopLengthChange, LoopModeler, LoopMoverFromCommandLine, LoopMover_Perturb_CCD, LoopMover_Perturb_KIC, LoopMover_Perturb_QuickCCD, LoopMover_Perturb_QuickCCD_Moves, LoopMover_Refine_Backrub, LoopMover_Refine_CCD, LoopMover_Refine_KIC, LoopMover_SlidingWindow, LoopOver, LoopProtocol, LoopRefineInnerCycleContainer, LoopRelaxMover, LoopRemodel, LoopmodelWrapper, MPDockingMover, MPDockingSetupMover, MPFastRelaxMover, MPSymDockMover, MSDMover, MakeBundle, MakeBundleHelix, MakeCanonicalHelix, MakeLatticeMover, MakeLayerMover, MakePolyX, MakeStarTopology, MapHotspot, MatDesGreedyOptMutationMover, MatchResiduesMover, MatcherMover, MembranePositionFromTopologyMover, MembraneTopology, MergePDB, MetricRecorder, MetropolisHastings, MinMover, MinPackMover, MinimizationRefiner, MinimizeBackbone, ModifyVariantType, MonteCarloAssemblyMover, MonteCarloRecover, MonteCarloReset, MonteCarloTest, MotifDnaPacker, MotifGraft, MultipleOutputWrapper, MultiplePoseMover, MutateResidue, NcbbDockDesign, NearNativeLoopCloser, NormalModeMinimizer, NormalModeRelax, NtoCConstraintGenerator, OopCreatorMover, OopDockDesign, OptimizeThreading, PDBReload, PDBTrajectoryRecorder, PSSM2Bfactor, PackRotamersMover, PackRotamersMoverPartGreedy, ParallelTempering, ParatopeEpitopeConstraintMover, ParatopeSiteConstraintMover, ParsedProtocol, PatchdockTransform, PeptideStubMover, PeriodicBoxMover, PerturbBundle, PerturbBundleHelix, PerturbByBins, PerturbChiSidechain, PerturbRotamerSidechain, PlaceOnLoop, PlaceSimultaneously, PlaceStub, PlaceSurfaceProbe, PlacementMinimization, PredesignPerturbMover, Prepack, PrepareForCentroid, PrepareForFullatom, ProteinInterfaceMS, PyMolMover, RampingMover, RandomConformers, RandomMover, RandomMutation, RandomOmegaFlipMover, RandomTorsionMover, RecomputeDensityMap, RemodelMover, RemoveConstraints, RemoveRemodelCsts, RenderGridsToKinemage, RepackMinimize, RepackTrial, RepackingRefiner, RepeatAssemblyMover, RepeatPropagation, ReplaceRegionMover, ReportEffectivePKA, ReportFSC, ReportGradients, ReportToDB, ResetBaseline, ResidueTypeConstraintMover, ResidueVicinityCstCreator, RigidBodyPerturbNoCenter, RigidBodyTiltMover, RigidBodyTransMover, RigidChunkCM, RingConformationMover, RollMover, RotamerRecoveryMover, RotamerTrialsMinMover, RotamerTrialsMover, RotamerTrialsRefiner, Rotate, Rotates, SampleTiltAngles, SaneMinMover, SaveAndRetrieveSidechains, SavePoseMover, ScaleMapIntensities, SchemePlaceMotifs, ScoreMover, ScriptCM, SecStructMinimizeMover, SeedFoldTree, SeedSetupMover, SegmentHybridizer, SeparateDnaFromNonDna, SetAACompositionPotential, SetChiMover, SetCrystWeight, SetMembranePositionMover, SetRefinementOptions, SetSecStructEnergies, SetTemperatureFactor, SetTorsion, SetupForDensityScoring, SetupForSymmetry, SetupHotspotConstraints, SetupHotspotConstraintsLoops, SetupNCS, SetupPoissonBoltzmannPotential, Shear, ShearMinCCDTrial, SheetCstGenerator, ShortBackrubMover, ShoveResidueMover, Sidechain, SidechainMC, SilentTrajectoryRecorder, SimpleGlycosylateMover, SimpleThreadingMover, SimulatedTempering, SingleFragmentMover, SlideTogether, Small, SmallMinCCDTrial, SpinMover, StapleChains, StapleMover, StartFrom, StoreCombinedStoredTasksMover, StoreCompoundTaskMover, StorePoseSnapshot, StoreResidueSubset, StoreTaskMover, StructPerturberCM, StructProfileMover, Subroutine, Superimpose, SwapSegment, SwitchChainOrder, SwitchResidueTypeSetMover, SymDockProtocol, SymDofMover, SymFoldandDockMoveRbJumpMover, SymFoldandDockRbTrialMover, SymFoldandDockSlideTrialMover, SymMinMover, SymPackRotamersMover, SymRotamerTrialsMover, SymmetricAddMembraneMover, TagPoseWithRefinementStats, TaskAwareCsts, TaskAwareMinMover, TaskAwareSymMinMover, TopologyBrokerMover, TrajectoryReportToDB, Transform, TransformIntoMembraneMover, Translate, TrialCounterObserver, TryDisulfPermutations, TryRotamers, Tumble, UniformRigidBodyCM, UniformRigidBodyMover, UpdateCrystInfo, UpdateEnzdesHeader, UpdateSolvent, VLB, VirtualRoot, VisualizeEmbeddingMover, VisualizeMembraneMover, VoxelSpacingRefinement, WriteLigandMolFile, build_Ala_pose, ddG, load_unbound_rot, profile, Error: ERROR: Exception caught by rosetta_scripts application:FastDesign is not known to the MoverFactory. Was it registered via a MoverRegistrator in one of the init.cc files (devel/init.cc or protocols/init.cc)? Error: