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AddChainBreakMover[[include:mover_AddChainBreak_type]]AddChainMover
[[include:mover_AddChainBreak_type]]AddCompositionConstraintMover
[[include:mover_AddChainBreak_type]]AddConstraintsMover
[[include:mover_AddChainBreak_type]]AddConstraintsToCurrentConformationMover
[[include:mover_AddChainBreak_type]]AddHelixSequenceConstraintsMover
[[include:mover_AddChainBreak_type]]AddHydrogensMover
[[include:mover_AddChainBreak_type]]AddJobPairDataMover
[[include:mover_AddChainBreak_type]]AddLigandMotifRotamersOperation
[[include:mover_AddChainBreak_type]]AddMHCEpitopeConstraintMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]]AddNetChargeConstraintMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]]AddOrRemoveMatchCstsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]]AddResidueCouplingConstraint
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]]AddResidueLabelMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]]AddSidechainConstraintsToHotspotsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]]AlaScanFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]]AlignByResidueSelectorMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]]AlignChainMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]]AlignedThreadOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]]AlignmentAAFinderFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]]AlignmentFileGeneratorMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[Ligands]]AlignmentGapInserterFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]]AlignPDBInfoToSequences
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]AMBRose
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Analysis applications
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Analyzing Results
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Anchor finder
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Anchored design
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Anchored pdb creator
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]AnchoredGraftMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]AngleToVectorFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Antibody applications
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Antibody assemble CDRs
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Antibody Design Strategy Analysis
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Antibody mode camelid
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Antibody model CDR H3
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]Antibody protocol
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[RosettaAntibody3 application: Antibody Homology Modeling|antibody-cc]]Antibody python script
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]AntibodyCDRGrafter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]AntibodyDesignModeler
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]]AntibodyDesignMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]]AntibodyDesignProtocol
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]]App fragment picker
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]]App name
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]]AppendAssemblyMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AppendixA
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AppendixB
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AppendRotamerOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AppendRotamerSetOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]Application docs template
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[ Title of Your Application Here]] [[ name of application ]]Application Documentation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[GlycanTreeSelector]]Application template
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[ Name of Your Application HERE ]]ApproximateBuriedUnsatPenalty
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]Apps
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[ddg_benchmark]] [[design_contrast_and_statistic]] [[rotamer_recovery]] [[combine_silent]] [[idealize_jd2]] [[minimize]] [[minimize_ppi]] [[contactMap]] [[ensemble_analysis]] [[fast_clustering]] [[per_residue_energies]] [[score]] [[antibody_legacy]] [[cluster_alns]] [[fix_alignment_to_match_pdb]] [[full_length_model]] [[partial_thread]] [[score_aln]] [[score_aln2]] [[super_aln]] [[validate_silent]] [[coupled_moves]] [[ensemble_generator_score12_sidechain_ver2]] [[minimize_with_cst]] [[beta_peptide_modeling]] [[zinc2_homodimer_setup]] [[zinc2_homodimer_design]] [[loops_from_density|loops-from-density]] [[FiberDiffractionFreeSet]] [[validate_database]] [[extract_motifs]] [[incorporate_motifs]] [[UnfoldedStateEnergyCalculator|unfolded-energy-state-calculator]] [[r_noe_assign]] [[peptoid_design]] [[rna_features]] [[rna_predict_chem_map]] [[rna_suitename]]Assembly of models
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[LegacyMonteCarloAssemblyMover]] [[RepeatAssemblyMover]] [[RequirementSet]] [[SEWING Dictionary]]AssemblyMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AssemblyRequirements
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AssemblyScorers
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AtomCoordinateCstMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AtomicContactCountFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AtomicContactFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AtomicDistanceFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]]AtomPairConstraintGenerator
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]]Atomtree overview
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]]AtomTreeMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]]AuctionMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]]Auto drrafter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]]AverageDegreeFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]]AveragePathLengthFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]]AverageProbabilitiesMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]BackboneGridSamplerMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]Backrub
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]BackrubDDMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]BackrubMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]Batch distances
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]BatchRelaxExample
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]Before commit check
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]BestHotspotCstMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]]BestMutationsFromProbabilitiesMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Beta nov15 benchmark results
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Beta strand homodimer design
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Biased forward folding
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Bin transition probabilities file
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BindingStrainFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BluePrintBDRMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BoltzmannFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BridgeChainsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BrokeredEnvironment
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Build Documentation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Build peptide
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BuildAlaPoseMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Building Rosetta on the Argonne Mira Blue Gene supercomputer
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]Building Rosetta with TensorFlow and Torch
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BuildingBlockInterfaceOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BundleGridSampler
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]]BundleGridSamplerMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]]BundleReporterFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]]BuriedSurfaceAreaFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]]BuriedUnsatHbonds2Filter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]]BuriedUnsatHbondsFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]]BuriedUnsatPenalty
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[PolarGroupBurialPyMolStringMetric] * [[SimpleMetrics]]Ca to allatom
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]]CalculatorFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]]CalculatorMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]Calibur clustering
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]Cartesian ddG
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]CartesianMD
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]CavityVolumeFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]CCDEndsGraftMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]CDR Cluster Constrained Relax
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]CDR Cluster Identification
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]CDRDihedralConstraintMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]CenRotModel
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]Centroid score terms
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]Centroid vs fullatom
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[Monte Carlo]]ChainBreakFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]]ChainCountFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]]Challenges in Macromolecular Modeling
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]]Checklist
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]]Chemical shift file
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]]ChemicalFeaturesReporters
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]]CitationManager
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]]Cl complex rescore
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]]ClashCheckFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]ClearCompositionConstraintsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]ClearConstraintsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]ClientMovers
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Cluster
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Code_templates
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Coding Conventions
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]CombinedValueFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Commands collection
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Common Errors
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Comparing Structures
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]CompleteConnectionsFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Completed_job_summary
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]Composite protocols
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]]CompositeEnergyMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]]CompoundStatementFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]]ComputeLigandRDFMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]]Computing SASA in Rosetta
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]]ConfChangeMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]ConsensusDesignMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]ConsensusLoopDesignOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]ConservativeDesignOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constel
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint file
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint Info
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_AtomPairConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_AutomaticSheetConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_CoordinateConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_DihedralConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_DistanceConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_FileConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_HydrogenBondConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_MembraneSpanConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_MetalContactsConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_ResidueTypeConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_SegmentedAtomPairConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_SheetConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_TerminiConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]Constraint_generator_trRosettaConstraintGenerator_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]ConstraintGenerators
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]ConstraintScoreFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]ConstraintSetMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]]ConstraintsMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]]ContactMapMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]]ContingentAcceptMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]]ContingentFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]]Control_panel
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]]ConvertRealToVirtualMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[GlycanTreeRelax]]ConvertVirtualToRealMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]]CoordinateConstraintGenerator
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]]CopyRotamerMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]]Count cycpep sequences
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]]Coupled moves
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]]CrankshaftFlipMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]]Create clash based repack shell
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]]CreateGlycanSequonMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]]CreateSequenceMotifMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]]Creating_the_job_dag
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]]Crick params files
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]]CrosslinkerMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]]CS Rosetta
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]]CS Rosetta RNA
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]]CstInfoMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]]CurrentProbabilityMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]]Curvedsheetdesign
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]]CustomBaseTypePackerPalette
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[Phi ResidueSelector|PhiSelector]]CustomRealValueMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]]CustomStringValueMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]]CutOutDomainMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]]Cxx11 merge
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]]Cxx11Support
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]]CycpepRigidBodyPermutationMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]CycpepSymmetryFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]D Amino Acids
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]DARC
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]Database
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]Database Conventions
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]Database IO
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]Database options
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]Database support
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]Database_session_loader_DATABASE_SESSIONS_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]DatabaseThreadOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]Ddg monomer
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]]DdgFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]]DdGMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]]DdGScanFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]]DeclareBond
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]]DEEREnergy
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]]DefaultPackerPalette
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]DeleteChainsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]DeleteRegionMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]DeltaFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Denovo_perturber_CompoundPerturber_complex_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[CompoundPerturbers|BuildDeNovoBackboneMover]]Denovo_perturber_ConnectionPerturber_complex_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Denovo_perturber_HelixPerturber_complex_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Denovo_perturber_NullPerturber_complex_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Denovo_segment_pairing_HelixPairing_complex_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Denovo_segment_pairing_HelixSheetPairing_complex_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Denovo_segment_pairing_StrandPairing_complex_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Density map scoring
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Design applications
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]Design guidance terms
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]DesignableResiduesFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]]DesignAroundOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DesignByCavityProximityOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DesignByResidueCentralityOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DesignBySecondaryStructureOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DesignCatalyticResiduesOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DesignMinimizeHBondsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DesignRandomRegionOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DesignRestrictionsOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DetailedBalanceScientificBenchmark
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DetectProteinLigandInterfaceOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DetectSymmetryMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]Determining what a problem is
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]Devel tutorials
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]Developing for the Broker
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]Development Documentation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[Namespace objexxFCL]]DiffAtomBurialFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DihedralConstraintGenerator
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]]DihedralDistanceMetric
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]]DisableAntibodyRegionOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]]DisableCDRsOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]]DisallowIfNonnativeOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]]Discarding_job_results
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]]DisplayPoseLabelsMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]]DistanceConstraintGenerator
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]]DisulfideEntropyFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]]DisulfideFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]]DisulfideMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]]DisulfidizeMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]]DNA_methylation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[EnzymaticMovers]]DnaInterfacePackerMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]]DNAMethyltransferaseMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]Docking applications
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]Docking prepack protocol
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]Docking protocol
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DockingInitialPerturbationMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DockingMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DockingProtocolMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DockingScientificBenchmark
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DockWithHotspotMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DomainAssemblyMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]Doug dock design min mod2 cal cal
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]Doxygen tips
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]Drrafter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DSasaFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DsspDesignOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DsspMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]Dump capped residue
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]]DumpPdbMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]]Energy_based_clustering_application
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]]EnergyFunctionFeaturesReporters
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]]EnergyPerResidueFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]]EnsureExclusivelySharedJumpMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]EnvClaim
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]EnzRepackMinimizeMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]EnzScoreFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]EnzymaticMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[N-terminal_acetylation]]Enzyme design
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]Erraser
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]ERRASER2
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]ExperimentalFeaturesReporters
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]ExpiryFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]ExplicitWaterMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]ExposedHydrophobicsFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]ExtendChainMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]Extending the PyMol Viewer
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]]ExternalPackerResultLoader
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]]Extract atomtree diffs
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]]Extract pdbs
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]]ExtractAsymmetricPoseMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]]ExtractAsymmetricUnitMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]]ExtractSubposeMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]]ExtraRotamersGenericOperation
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]]FalseFilter
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]]FAQ
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]]FARFAR2
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[strategies for building up models gradually|rna-denovo-setup], or solving small motifs first with [[stepwise]]Farna refactor
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]]Fasta file
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]]FastDesignMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]]FastRelaxMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]]FavorNativeResidueMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]]FavorSequenceProfileMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]FavorSymmetricSequenceMover
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]FeatureReporters
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features reporter overview
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features schema
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features_reporter_AntibodyFeatures_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features_reporter_AtomAtomPairFeatures_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features_reporter_AtomInResidueAtomInResiduePairFeatures_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features_reporter_AtomTypesFeatures_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features_reporter_BetaTurnDetectionFeatures_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features_reporter_CDRClusterFeatures_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]Features_reporter_ChargeChargeFeatures_type
[[include:mover_AddChainBreak_type]] [[include:mover_AddMHCEpitopeConstraintMover_type]] [[include:mover_AddResidueLabel_type]] [[include:mover_AlignByResidueSelectorMover_type]] [[include:mover_AlignPDBInfoToSequences_type]] [[include:mover_AntibodyDesignMover_type]] [[include:mover_AntibodyDesignProtocol_type]] [[include:mover_AppendAssemblyMover_type]] [[include:constraint_generator_AtomPairConstraintGenerator_type]] [[include:simple_metric_AverageProbabilitiesMetric_type]] [[include:simple_metric_BestMutationsFromProbabilitiesMetric_type]] [[include:mover_BundleGridSampler_type]] [[include:filter_BuriedUnsatHbonds2_type]] [[include:simple_metric_CalculatorMetric_type]] [[include:filter_ChainCountFilter_type]] [[include:filter_ClashCheck_type]] [[include:simple_metric_CompositeEnergyMetric_type]] [[include:mover_ConfChangeMover_type]] [[include:simple_metric_ConstraintsMetric_type]] [[include:mover_ConvertRealToVirtualMover_type]] [[include:mover_ConvertVirtualToRealMover_type]] [[include:mover_CreateGlycanSequonMover_type]] [[include:mover_CreateSequenceMotifMover_type]] [[include:mover_CrosslinkerMover_type]] [[include:mover_CstInfoMover_type]] [[include:simple_metric_CurrentProbabilityMetric_type]] [[include:packer_palette_CustomBaseTypePackerPalette_type]] [[include:simple_metric_CustomRealValueMetric_type]] [[include:simple_metric_CustomStringValueMetric_type]] [[include:mover_CycpepRigidBodyPermutationMover_type]] [[include:filter_Ddg_type]] [[include:mover_Ddg_type]] [[include:packer_palette_DefaultPackerPalette_type]] [[include:to_DesignAround_type]] [[include:simple_metric_DihedralDistanceMetric_type]] [[include:mover_DisplayPoseLabelsMover_type]] [[include:mover_DNAMethyltransferaseMover_type]] [[include:mover_DumpPdb_type]] [[include:mover_EnsureExclusivelySharedJumpMover_type]] [[include:mover_ExternalPackerResultLoader_type]] [[include:mover_ExtractAsymmetricUnit_type]] [[include:mover_FastDesign_type]] [[include:mover_FastRelax_type]] [[include:mover_FavorSequenceProfile_type]]